One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: dyads_m2_shift4 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m2_shift4 (dyads_m2)
; dyads_m2; m=0 (reference); ncol1=20; shift=4; ncol=24; ----camACACACACACACACaca ; Alignment reference a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m2_shift4 (dyads_m2)
; dyads_m2 versus dyads_m2; m=1/33; ncol2=20; w=0; offset=0; strand=D; shift=4; score= 1; ----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift5 (dyads_m10)
; dyads_m2 versus dyads_m10; m=2/33; ncol2=18; w=0; offset=1; strand=D; shift=5; score=0.878168; -----ACACACACACACACrCAC- ; cor=; Ncor= a 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 c 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 g 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 t 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0

positions_6nt_m4_rc_shift3 (positions_6nt_m4_rc)
; dyads_m2 versus positions_6nt_m4_rc; m=3/33; ncol2=23; w=-1; offset=-1; strand=R; shift=3; score=0.857624; ---acACACACACACACACACACA ; cor=; Ncor= a 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 c 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 g 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 t 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481

positions_7nt_m9_shift0 (positions_7nt_m9)
; dyads_m2 versus positions_7nt_m9; m=4/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score= 0.819; caCACACACACACACACACACaca ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_6nt_m6_shift1 (positions_6nt_m6)
; dyads_m2 versus positions_6nt_m6; m=5/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.81798; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142

positions_6nt_m10_shift1 (positions_6nt_m10)
; dyads_m2 versus positions_6nt_m10; m=6/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.817805; -aCACACACACACACACACACACa ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_7nt_m1_shift4 (positions_7nt_m1)
; dyads_m2 versus positions_7nt_m1; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=4; score=0.816251; ----cacACACACACACACACACA ; cor=; Ncor= a 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 c 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 g 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 t 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236

positions_7nt_m6_shift0 (positions_7nt_m6)
; dyads_m2 versus positions_7nt_m6; m=8/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.815559; caCACACACACACACACACACACa ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m1_shift0 (positions_6nt_m1)
; dyads_m2 versus positions_6nt_m1; m=9/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score= 0.8146; caCACACACACACACACACACaca ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m2_shift1 (positions_6nt_m2)
; dyads_m2 versus positions_6nt_m2; m=10/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.814072; -mmmmmmaCACACrCACACACaCa ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657

dyads_m8_shift2 (dyads_m8)
; dyads_m2 versus dyads_m8; m=11/33; ncol2=24; w=-2; offset=-2; strand=D; shift=2; score=0.813645; --cacACACACACACACACACACa ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252

dyads_m1_shift2 (dyads_m1)
; dyads_m2 versus dyads_m1; m=12/33; ncol2=24; w=-2; offset=-2; strand=D; shift=2; score=0.812587; --caCaCACACACACACACACACa ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262

positions_7nt_m5_shift3 (positions_7nt_m5)
; dyads_m2 versus positions_7nt_m5; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.811137; ---acAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 c 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 g 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 t 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307

positions_7nt_m7_shift3 (positions_7nt_m7)
; dyads_m2 versus positions_7nt_m7; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.810574; ---acaCACACACACACACACACA ; cor=; Ncor= a 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 c 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 g 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 t 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494

positions_6nt_m9_shift0 (positions_6nt_m9)
; dyads_m2 versus positions_6nt_m9; m=15/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.807867; cACACACACACACACACACACAca ; cor=; Ncor= a 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_7nt_m2_shift3 (positions_7nt_m2)
; dyads_m2 versus positions_7nt_m2; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.806882; ---aCAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 c 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 g 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 t 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190

positions_7nt_m3_shift0 (positions_7nt_m3)
; dyads_m2 versus positions_7nt_m3; m=17/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.806466; cACACACACACACACACACACaca ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_7nt_m10_shift1 (positions_7nt_m10)
; dyads_m2 versus positions_7nt_m10; m=18/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.805419; -aCACACACACACACACACACACa ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_6nt_m7_shift0 (positions_6nt_m7)
; dyads_m2 versus positions_6nt_m7; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.803906; cacamACACACACACACACACACA ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m8_shift0 (positions_6nt_m8)
; dyads_m2 versus positions_6nt_m8; m=20/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.803687; caCACACACACACACACACACACa ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_6nt_m5_shift3 (positions_6nt_m5)
; dyads_m2 versus positions_6nt_m5; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.803403; ---acamACACACACACACACACA ; cor=; Ncor= a 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 c 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 g 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 t 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169

positions_7nt_m4_shift1 (positions_7nt_m4)
; dyads_m2 versus positions_7nt_m4; m=22/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.80249; -aCACACACACACACACACACAca ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_7nt_m8_shift3 (positions_7nt_m8)
; dyads_m2 versus positions_7nt_m8; m=23/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.801902; ---acaCACACACACACACACACA ; cor=; Ncor= a 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 c 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 g 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 t 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385

positions_6nt_m3_shift1 (positions_6nt_m3)
; dyads_m2 versus positions_6nt_m3; m=24/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.801821; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)
; dyads_m2 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=3; strand=D; shift=7; score=0.784343; -------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0

oligos_6nt_mkv4_m5_rc_shift5 (oligos_6nt_mkv4_m5_rc)
; dyads_m2 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=1; strand=R; shift=5; score=0.731421; -----acAsACACrCACAsac--- ; cor=; Ncor= a 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 c 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 g 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 t 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; dyads_m2 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=4; strand=D; shift=8; score=0.71013; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)
; dyads_m2 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=6; strand=D; shift=10; score=0.621585; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0

oligos_7nt_mkv5_m5_shift8 (oligos_7nt_mkv5_m5)
; dyads_m2 versus oligos_7nt_mkv5_m5; m=29/33; ncol2=14; w=0; offset=4; strand=D; shift=8; score=0.612532; --------caCACGCACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 c 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 g 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 t 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0

dyads_m3_shift9 (dyads_m3)
; dyads_m2 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=5; strand=D; shift=9; score=0.602203; ---------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

dyads_m7_shift9 (dyads_m7)
; dyads_m2 versus dyads_m7; m=31/33; ncol2=14; w=0; offset=5; strand=D; shift=9; score=0.602065; ---------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0

dyads_m9_shift11 (dyads_m9)
; dyads_m2 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=7; strand=D; shift=11; score=0.550978; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)
; dyads_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=6; strand=D; shift=10; score=0.503447; ----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m1; m=0 (reference); ncol1=24; shift=1; ncol=25; -caCACACACACACACACACACaca ; Alignment reference a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m1 versus positions_6nt_m1; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_6nt_m1 versus positions_7nt_m9; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.997447; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_6nt_m1 versus positions_6nt_m9; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993629; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

dyads_m8_shift1 (dyads_m8)
; positions_6nt_m1 versus dyads_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992491; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m1 versus positions_7nt_m3; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991684; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

dyads_m1_shift1 (dyads_m1)
; positions_6nt_m1 versus dyads_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.990807; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_6nt_m1 versus positions_7nt_m6; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989296; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_6nt_m1 versus positions_6nt_m8; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986493; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m1 versus positions_7nt_m1; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985834; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_6nt_m1 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.972641; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_6nt_m1 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.94609; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_6nt_m1 versus positions_6nt_m10; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914134; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m1 versus positions_6nt_m3; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912376; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_6nt_m1 versus positions_7nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909851; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_7nt_m4_shift0 (positions_7nt_m4)
; positions_6nt_m1 versus positions_7nt_m4; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909244; aCACACACACACACACACACAcac- ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 0 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 0 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 0 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282 0

positions_7nt_m8_shift0 (positions_7nt_m8)
; positions_6nt_m1 versus positions_7nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908187; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m1 versus positions_7nt_m5; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.90756; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_7nt_m7_shift0 (positions_7nt_m7)
; positions_6nt_m1 versus positions_7nt_m7; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.906762; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_6nt_m1 versus positions_7nt_m2; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.90676; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m1 versus positions_6nt_m5; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.905847; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_6nt_m1 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.904567; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m1 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.861073; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_6nt_m1 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score= 0.8146; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift4 (dyads_m10)
; positions_6nt_m1 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.737685; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; positions_6nt_m1 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.662497; --------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; positions_6nt_m1 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.608752; -------caCwCACAyACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m1 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.601289; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)
; positions_6nt_m1 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=8; strand=D; shift=9; score=0.526094; ---------caCACAcACACac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0

dyads_m7_shift4 (dyads_m7)
; positions_6nt_m1 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.525649; ----acAyACACACAyac------- ; cor=; Ncor= a 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 0 0 0 c 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 0 0 0 g 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 0 0 0 t 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0 0 0 0

dyads_m3_shift4 (dyads_m3)
; positions_6nt_m1 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.509644; ----acAyACACACrCac------- ; cor=; Ncor= a 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 c 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 g 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 t 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; positions_6nt_m1 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.490066; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift12 (dyads_m9)
; positions_6nt_m1 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score= 0.4758; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; positions_6nt_m1 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.443916; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m3_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m3_shift0 (oligos_6nt_mkv4_m3)
; oligos_6nt_mkv4_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; mrCTGTCAaamg ; Alignment reference a 526 362 41 28 74 16 39 1314 942 891 393 301 c 353 229 1319 34 50 45 1321 36 139 210 434 341 g 252 522 20 27 1237 28 21 34 168 140 278 427 t 281 299 32 1323 51 1323 31 28 163 171 307 343

oligos_6nt_mkv4_m3_shift0 (oligos_6nt_mkv4_m3)
; oligos_6nt_mkv4_m3 versus oligos_6nt_mkv4_m3; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; mrCTGTCAaamg ; cor=; Ncor= a 526 362 41 28 74 16 39 1314 942 891 393 301 c 353 229 1319 34 50 45 1321 36 139 210 434 341 g 252 522 20 27 1237 28 21 34 168 140 278 427 t 281 299 32 1323 51 1323 31 28 163 171 307 343

One-to-n matrix alignment; reference matrix: positions_7nt_m4_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m4; m=0 (reference); ncol1=24; shift=1; ncol=25; -aCACACACACACACACACACAcac ; Alignment reference a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m4 versus positions_7nt_m4; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m4 versus positions_7nt_m10; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993301; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_7nt_m4 versus positions_6nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988773; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m4 versus positions_7nt_m7; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988394; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m4 versus positions_7nt_m8; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988074; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m4 versus positions_6nt_m3; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98741; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m4 versus positions_7nt_m5; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986441; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m4 versus positions_7nt_m2; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986226; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_7nt_m4 versus positions_6nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.978349; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_7nt_m4 versus positions_6nt_m5; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976935; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m4 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.945114; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m8_shift0 (positions_6nt_m8)
; positions_7nt_m4 versus positions_6nt_m8; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.919776; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_7nt_m4 versus positions_6nt_m9; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914814; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_7nt_m4 versus positions_7nt_m6; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914389; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

dyads_m8_shift0 (dyads_m8)
; positions_7nt_m4 versus dyads_m8; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912237; cacACACACACACACACACACaca- ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 0 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 0 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 0 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765 0

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m4 versus positions_7nt_m1; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.911769; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0

positions_7nt_m3_shift0 (positions_7nt_m3)
; positions_7nt_m4 versus positions_7nt_m3; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910472; cACACACACACACACACACACaca- ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 0 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 0 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 0 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213 0

positions_7nt_m9_shift0 (positions_7nt_m9)
; positions_7nt_m4 versus positions_7nt_m9; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910244; caCACACACACACACACACACaca- ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 0 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 0 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 0 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341 0

dyads_m1_shift0 (dyads_m1)
; positions_7nt_m4 versus dyads_m1; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909832; caCaCACACACACACACACACaca- ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 0 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 0 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 0 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761 0

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_7nt_m4 versus positions_6nt_m1; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909244; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_7nt_m4 versus positions_6nt_m7; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.901113; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m4 versus positions_6nt_m2; m=22/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.898709; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

dyads_m2_shift4 (dyads_m2)
; positions_7nt_m4 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=4; score=0.80249; ----camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0

dyads_m10_shift1 (dyads_m10)
; positions_7nt_m4 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.739613; -ACACACACACACACrCAC------ ; cor=; Ncor= a 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 0 0 c 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 0 0 g 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 0 0 t 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0 0 0

oligos_7nt_mkv5_m8_shift1 (oligos_7nt_mkv5_m8)
; positions_7nt_m4 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.658708; -ACACACACACACACAC-------- ; cor=; Ncor= a 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 0 0 0 0 0 c 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 0 0 0 0 0 g 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 0 0 0 0 0 t 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0 0 0 0 0 0

oligos_6nt_mkv4_m5_rc_shift7 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m4 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=6; strand=R; shift=7; score=0.612207; -------acAsACACrCACAsac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 c 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 g 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 t 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; positions_7nt_m4 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.592034; --------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

dyads_m3_shift5 (dyads_m3)
; positions_7nt_m4 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=4; strand=D; shift=5; score=0.527383; -----acAyACACACrCac------ ; cor=; Ncor= a 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 c 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 g 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 t 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0

oligos_7nt_mkv5_m4_shift2 (oligos_7nt_mkv5_m4)
; positions_7nt_m4 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=1; strand=D; shift=2; score=0.526506; --caCACAcACACac---------- ; cor=; Ncor= a 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 0 c 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 0 g 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 0 t 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0 0

dyads_m7_shift11 (dyads_m7)
; positions_7nt_m4 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.513508; -----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; positions_7nt_m4 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.510035; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m9_shift5 (dyads_m9)
; positions_7nt_m4 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=4; strand=D; shift=5; score=0.461738; -----acATACACACmca------- ; cor=; Ncor= a 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 c 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 g 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 t 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0

oligos_7nt_mkv5_m9_shift12 (oligos_7nt_mkv5_m9)
; positions_7nt_m4 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.430514; ------------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m8_shift8 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; oligos_7nt_mkv5_m8; m=0 (reference); ncol1=16; shift=8; ncol=24; --------ACACACACACACACAC ; Alignment reference a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m8; m=1/33; ncol2=16; w=0; offset=0; strand=D; shift=8; score= 1; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; oligos_7nt_mkv5_m8 versus oligos_6nt_mkv4_m5_rc; m=2/33; ncol2=16; w=0; offset=0; strand=R; shift=8; score=0.912141; --------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

dyads_m10_shift6 (dyads_m10)
; oligos_7nt_mkv5_m8 versus dyads_m10; m=3/33; ncol2=18; w=-2; offset=-2; strand=D; shift=6; score=0.872418; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; oligos_7nt_mkv5_m8 versus oligos_6nt_mkv4_m2; m=4/33; ncol2=16; w=-1; offset=-1; strand=D; shift=7; score=0.807829; -------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m4; m=5/33; ncol2=13; w=0; offset=1; strand=D; shift=9; score=0.793847; ---------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0

dyads_m2_shift5 (dyads_m2)
; oligos_7nt_mkv5_m8 versus dyads_m2; m=6/33; ncol2=20; w=-3; offset=-3; strand=D; shift=5; score=0.784343; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822

dyads_m7_shift10 (dyads_m7)
; oligos_7nt_mkv5_m8 versus dyads_m7; m=7/33; ncol2=14; w=0; offset=2; strand=D; shift=10; score=0.771124; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m3_shift8 (dyads_m3)
; oligos_7nt_mkv5_m8 versus dyads_m3; m=8/33; ncol2=14; w=0; offset=0; strand=D; shift=8; score=0.755625; --------acAyACACACrCac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 c 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 g 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 t 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0

oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m5; m=9/33; ncol2=14; w=0; offset=1; strand=D; shift=9; score=0.731657; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

positions_6nt_m4_rc_shift4 (positions_6nt_m4_rc)
; oligos_7nt_mkv5_m8 versus positions_6nt_m4_rc; m=10/33; ncol2=23; w=-4; offset=-4; strand=R; shift=4; score=0.68675; ----acACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 c 0 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 g 0 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 t 0 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344

dyads_m9_shift10 (dyads_m9)
; oligos_7nt_mkv5_m8 versus dyads_m9; m=11/33; ncol2=13; w=0; offset=2; strand=D; shift=10; score=0.676143; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

positions_6nt_m3_shift0 (positions_6nt_m3)
; oligos_7nt_mkv5_m8 versus positions_6nt_m3; m=12/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.664025; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m3_shift1 (positions_7nt_m3)
; oligos_7nt_mkv5_m8 versus positions_7nt_m3; m=13/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.662911; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m1_shift1 (positions_6nt_m1)
; oligos_7nt_mkv5_m8 versus positions_6nt_m1; m=14/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.662497; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_7nt_m9_shift1 (positions_7nt_m9)
; oligos_7nt_mkv5_m8 versus positions_7nt_m9; m=15/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.662263; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

positions_7nt_m10_shift2 (positions_7nt_m10)
; oligos_7nt_mkv5_m8 versus positions_7nt_m10; m=16/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.661394; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137

positions_6nt_m9_shift3 (positions_6nt_m9)
; oligos_7nt_mkv5_m8 versus positions_6nt_m9; m=17/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.660589; ---cACACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 c 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 g 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 t 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m9; m=18/33; ncol2=13; w=0; offset=3; strand=D; shift=11; score=0.66036; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

positions_7nt_m7_shift4 (positions_7nt_m7)
; oligos_7nt_mkv5_m8 versus positions_7nt_m7; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=4; score=0.660002; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 c 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 g 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 t 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600

positions_7nt_m8_shift6 (positions_7nt_m8)
; oligos_7nt_mkv5_m8 versus positions_7nt_m8; m=20/33; ncol2=24; w=-2; offset=-2; strand=D; shift=6; score=0.659471; ------acaCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 c 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 g 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 t 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509

dyads_m8_shift3 (dyads_m8)
; oligos_7nt_mkv5_m8 versus dyads_m8; m=21/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.659078; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 c 0 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 g 0 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 t 0 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018

dyads_m1_shift1 (dyads_m1)
; oligos_7nt_mkv5_m8 versus dyads_m1; m=22/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.658892; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_6nt_m10_shift2 (positions_6nt_m10)
; oligos_7nt_mkv5_m8 versus positions_6nt_m10; m=23/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.658883; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246

positions_7nt_m4_shift8 (positions_7nt_m4)
; oligos_7nt_mkv5_m8 versus positions_7nt_m4; m=24/33; ncol2=24; w=0; offset=0; strand=D; shift=8; score=0.658708; --------aCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 c 0 0 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 g 0 0 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 t 0 0 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459

positions_6nt_m8_shift7 (positions_6nt_m8)
; oligos_7nt_mkv5_m8 versus positions_6nt_m8; m=25/33; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.657679; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 c 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 g 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 t 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495

positions_6nt_m5_shift0 (positions_6nt_m5)
; oligos_7nt_mkv5_m8 versus positions_6nt_m5; m=26/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.657393; acamACACACACACACACACACAC ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_7nt_m6_shift1 (positions_7nt_m6)
; oligos_7nt_mkv5_m8 versus positions_7nt_m6; m=27/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.657339; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590

positions_6nt_m6_shift2 (positions_6nt_m6)
; oligos_7nt_mkv5_m8 versus positions_6nt_m6; m=28/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.657234; --acaCacACACACACACACACAC ; cor=; Ncor= a 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 c 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 g 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 t 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820

positions_7nt_m5_shift2 (positions_7nt_m5)
; oligos_7nt_mkv5_m8 versus positions_7nt_m5; m=29/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.656823; --acAcACACACACACACACACAC ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599

positions_7nt_m1_shift3 (positions_7nt_m1)
; oligos_7nt_mkv5_m8 versus positions_7nt_m1; m=30/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.656518; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 c 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 g 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 t 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570

positions_6nt_m7_shift5 (positions_6nt_m7)
; oligos_7nt_mkv5_m8 versus positions_6nt_m7; m=31/33; ncol2=24; w=-3; offset=-3; strand=D; shift=5; score=0.655536; -----cacamACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 c 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 g 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 t 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165

positions_7nt_m2_shift0 (positions_7nt_m2)
; oligos_7nt_mkv5_m8 versus positions_7nt_m2; m=32/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.655269; aCAcACACACACACACACACACAC ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_6nt_m2_shift2 (positions_6nt_m2)
; oligos_7nt_mkv5_m8 versus positions_6nt_m2; m=33/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.65205; --mmmmmmaCACACrCACACACaC ; cor=; Ncor= a 0 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 c 0 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 g 0 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 t 0 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490

One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_7nt_m3; m=0 (reference); ncol1=24; shift=1; ncol=25; -cACACACACACACACACACACaca ; Alignment reference a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_7nt_m3 versus positions_7nt_m3; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

dyads_m1_shift1 (dyads_m1)
; positions_7nt_m3 versus dyads_m1; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992979; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_7nt_m3 versus positions_7nt_m9; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992586; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_7nt_m3 versus positions_6nt_m9; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992166; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

dyads_m8_shift1 (dyads_m8)
; positions_7nt_m3 versus dyads_m8; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991956; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_7nt_m3 versus positions_6nt_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991684; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_7nt_m3 versus positions_6nt_m8; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989604; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m3 versus positions_7nt_m1; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986925; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_7nt_m3 versus positions_7nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986373; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_7nt_m3 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.970045; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_7nt_m3 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.944941; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_7nt_m3 versus positions_7nt_m10; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.915545; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_7nt_m3 versus positions_6nt_m3; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914166; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0

positions_7nt_m8_shift0 (positions_7nt_m8)
; positions_7nt_m3 versus positions_7nt_m8; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913707; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_7nt_m7_shift0 (positions_7nt_m7)
; positions_7nt_m3 versus positions_7nt_m7; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score= 0.9119; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0

positions_7nt_m4_shift2 (positions_7nt_m4)
; positions_7nt_m3 versus positions_7nt_m4; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910472; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_7nt_m3 versus positions_7nt_m2; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910059; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_7nt_m3 versus positions_7nt_m5; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909596; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_7nt_m3 versus positions_6nt_m10; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908807; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_7nt_m3 versus positions_6nt_m5; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.907193; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_7nt_m3 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.900492; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_7nt_m3 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.846742; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_7nt_m3 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score=0.806466; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift6 (dyads_m10)
; positions_7nt_m3 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=5; strand=D; shift=6; score=0.735296; ------ACACACACACACACrCAC- ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; positions_7nt_m3 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.662911; --------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; positions_7nt_m3 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.604892; -------caCwCACAyACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m3 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.600368; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)
; positions_7nt_m3 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=8; strand=D; shift=9; score=0.523698; ---------caCACAcACACac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0

dyads_m7_shift4 (dyads_m7)
; positions_7nt_m3 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.51303; ----acAyACACACAyac------- ; cor=; Ncor= a 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 0 0 0 c 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 0 0 0 g 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 0 0 0 t 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0 0 0 0

dyads_m3_shift10 (dyads_m3)
; positions_7nt_m3 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.506723; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

oligos_7nt_mkv5_m5_shift3 (oligos_7nt_mkv5_m5)
; positions_7nt_m3 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=2; strand=D; shift=3; score=0.500348; ---caCACGCACACmca-------- ; cor=; Ncor= a 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 0 0 0 0 0 c 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 0 0 0 0 0 g 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 0 0 0 0 0 t 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0 0 0 0 0 0

dyads_m9_shift12 (dyads_m9)
; positions_7nt_m3 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.475621; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; positions_7nt_m3 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.428794; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: dyads_m10_shift6 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m10_shift6 (dyads_m10)
; dyads_m10; m=0 (reference); ncol1=18; shift=6; ncol=24; ------ACACACACACACACrCAC ; Alignment reference a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

dyads_m10_shift6 (dyads_m10)
; dyads_m10 versus dyads_m10; m=1/33; ncol2=18; w=0; offset=0; strand=D; shift=6; score= 1; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

dyads_m2_shift5 (dyads_m2)
; dyads_m10 versus dyads_m2; m=2/33; ncol2=20; w=-1; offset=-1; strand=D; shift=5; score=0.878168; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; dyads_m10 versus oligos_7nt_mkv5_m8; m=3/33; ncol2=16; w=0; offset=2; strand=D; shift=8; score=0.872418; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_6nt_mkv4_m5_rc_shift6 (oligos_6nt_mkv4_m5_rc)
; dyads_m10 versus oligos_6nt_mkv4_m5_rc; m=4/33; ncol2=16; w=0; offset=0; strand=R; shift=6; score=0.802024; ------acAsACACrCACAsac-- ; cor=; Ncor= a 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 c 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 g 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 t 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; dyads_m10 versus oligos_6nt_mkv4_m2; m=5/33; ncol2=16; w=0; offset=1; strand=D; shift=7; score=0.79183; -------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; dyads_m10 versus positions_6nt_m4_rc; m=6/33; ncol2=23; w=-4; offset=-4; strand=R; shift=2; score=0.772107; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940

dyads_m8_shift3 (dyads_m8)
; dyads_m10 versus dyads_m8; m=7/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.740888; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 c 0 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 g 0 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 t 0 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018

positions_7nt_m7_shift2 (positions_7nt_m7)
; dyads_m10 versus positions_7nt_m7; m=8/33; ncol2=24; w=-4; offset=-4; strand=D; shift=2; score=0.740588; --acaCACACACACACACACACAC ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651

dyads_m1_shift3 (dyads_m1)
; dyads_m10 versus dyads_m1; m=9/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.740027; ---caCaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 c 0 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 g 0 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 t 0 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017

positions_7nt_m8_shift4 (positions_7nt_m8)
; dyads_m10 versus positions_7nt_m8; m=10/33; ncol2=24; w=-2; offset=-2; strand=D; shift=4; score=0.739934; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 c 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 g 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 t 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471

positions_7nt_m9_shift1 (positions_7nt_m9)
; dyads_m10 versus positions_7nt_m9; m=11/33; ncol2=24; w=-5; offset=-5; strand=D; shift=1; score=0.739874; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

positions_7nt_m4_shift6 (positions_7nt_m4)
; dyads_m10 versus positions_7nt_m4; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=6; score=0.739613; ------aCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 c 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 g 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 t 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450

positions_7nt_m6_shift1 (positions_7nt_m6)
; dyads_m10 versus positions_7nt_m6; m=13/33; ncol2=24; w=-5; offset=-5; strand=D; shift=1; score=0.739306; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590

positions_6nt_m10_shift4 (positions_6nt_m10)
; dyads_m10 versus positions_6nt_m10; m=14/33; ncol2=24; w=-2; offset=-2; strand=D; shift=4; score=0.739254; ----aCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 c 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 g 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 t 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127

positions_6nt_m5_shift0 (positions_6nt_m5)
; dyads_m10 versus positions_6nt_m5; m=15/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.739193; acamACACACACACACACACACAC ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m8_shift5 (positions_6nt_m8)
; dyads_m10 versus positions_6nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=5; score=0.739074; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 c 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 g 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 t 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475

positions_6nt_m6_shift0 (positions_6nt_m6)
; dyads_m10 versus positions_6nt_m6; m=17/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.738978; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m9_shift3 (positions_6nt_m9)
; dyads_m10 versus positions_6nt_m9; m=18/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.738974; ---cACACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 c 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 g 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 t 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037

positions_6nt_m1_shift3 (positions_6nt_m1)
; dyads_m10 versus positions_6nt_m1; m=19/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.737685; ---caCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 c 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 g 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 t 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006

positions_7nt_m5_shift4 (positions_7nt_m5)
; dyads_m10 versus positions_7nt_m5; m=20/33; ncol2=24; w=-2; offset=-2; strand=D; shift=4; score=0.736751; ----acAcACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 c 0 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 g 0 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 t 0 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563

positions_7nt_m2_shift6 (positions_7nt_m2)
; dyads_m10 versus positions_7nt_m2; m=21/33; ncol2=24; w=0; offset=0; strand=D; shift=6; score=0.736552; ------aCAcACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 c 0 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 g 0 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 t 0 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345

positions_6nt_m7_shift3 (positions_6nt_m7)
; dyads_m10 versus positions_6nt_m7; m=22/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.736462; ---cacamACACACACACACACAC ; cor=; Ncor= a 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 c 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 g 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 t 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153

positions_7nt_m10_shift0 (positions_7nt_m10)
; dyads_m10 versus positions_7nt_m10; m=23/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.736358; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_6nt_m3_shift0 (positions_6nt_m3)
; dyads_m10 versus positions_6nt_m3; m=24/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.735604; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m3_shift1 (positions_7nt_m3)
; dyads_m10 versus positions_7nt_m3; m=25/33; ncol2=24; w=-5; offset=-5; strand=D; shift=1; score=0.735296; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_7nt_m1_shift5 (positions_7nt_m1)
; dyads_m10 versus positions_7nt_m1; m=26/33; ncol2=24; w=-1; offset=-1; strand=D; shift=5; score=0.73515; -----cacACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 c 0 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 g 0 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 t 0 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546

positions_6nt_m2_shift0 (positions_6nt_m2)
; dyads_m10 versus positions_6nt_m2; m=27/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.734848; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

dyads_m3_shift10 (dyads_m3)
; dyads_m10 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=4; strand=D; shift=10; score=0.70574; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)
; dyads_m10 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=3; strand=D; shift=9; score=0.701278; ---------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0

dyads_m7_shift6 (dyads_m7)
; dyads_m10 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=0; strand=D; shift=6; score=0.69727; ------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0

oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)
; dyads_m10 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=3; strand=D; shift=9; score=0.658409; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m9_shift6 (dyads_m9)
; dyads_m10 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=0; strand=D; shift=6; score=0.620754; ------acATACACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 c 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 g 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 t 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0

oligos_7nt_mkv5_m9_shift9 (oligos_7nt_mkv5_m9)
; dyads_m10 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=3; strand=D; shift=9; score=0.563617; ---------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m1_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; cycCCACAAmm ; Alignment reference a 354 335 306 0 2 1250 50 1267 1364 427 379 c 516 530 804 1437 1382 94 1304 72 17 444 541 g 254 207 179 0 16 42 44 36 33 264 277 t 320 372 155 7 44 58 46 69 30 309 247

oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; cycCCACAAmm ; cor=; Ncor= a 354 335 306 0 2 1250 50 1267 1364 427 379 c 516 530 804 1437 1382 94 1304 72 17 444 541 g 254 207 179 0 16 42 44 36 33 264 277 t 320 372 155 7 44 58 46 69 30 309 247

oligos_6nt_mkv4_m9_shift0 (oligos_6nt_mkv4_m9)
; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m9; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.771457; mycCCACAGcv ; cor=; Ncor= a 351 293 194 0 22 1229 47 1193 25 335 370 c 446 514 929 1366 1252 59 1259 95 36 476 370 g 285 244 167 14 74 64 49 67 1298 267 380 t 320 351 112 22 54 50 47 47 43 324 282

dyads_m6_shift0 (dyads_m6)
; oligos_6nt_mkv4_m1 versus dyads_m6; m=3/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.706608; ccACCACCAcc ; cor=; Ncor= a 849 627 3918 50 30 4141 38 14 3899 676 705 c 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 g 690 543 129 102 115 126 110 85 188 692 474 t 681 894 234 208 231 102 266 247 146 935 795

One-to-n matrix alignment; reference matrix: positions_6nt_m7_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_6nt_m7; m=0 (reference); ncol1=24; shift=1; ncol=25; -cacamACACACACACACACACACA ; Alignment reference a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_6nt_m7 versus positions_6nt_m7; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_6nt_m7 versus positions_7nt_m6; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985444; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_6nt_m7 versus positions_6nt_m8; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.981928; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

dyads_m8_shift1 (dyads_m8)
; positions_6nt_m7 versus dyads_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980411; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_6nt_m7 versus positions_7nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98038; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m7 versus positions_7nt_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980244; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

dyads_m1_shift1 (dyads_m1)
; positions_6nt_m7 versus dyads_m1; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977538; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m7 versus positions_6nt_m1; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.972641; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m7 versus positions_7nt_m3; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.970045; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_6nt_m7 versus positions_6nt_m9; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.968749; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_6nt_m7 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.937824; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_6nt_m5_shift2 (positions_6nt_m5)
; positions_6nt_m7 versus positions_6nt_m5; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.918726; --acamACACACACACACACACACA ; cor=; Ncor= a 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 c 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 g 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 t 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585

positions_7nt_m8_shift2 (positions_7nt_m8)
; positions_6nt_m7 versus positions_7nt_m8; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913239; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 c 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 g 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 t 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016

positions_7nt_m5_shift2 (positions_7nt_m5)
; positions_6nt_m7 versus positions_7nt_m5; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909422; --acAcACACACACACACACACACa ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789

positions_7nt_m2_shift2 (positions_7nt_m2)
; positions_6nt_m7 versus positions_7nt_m2; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.907567; --aCAcACACACACACACACACACA ; cor=; Ncor= a 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 c 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 g 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 t 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703

positions_6nt_m3_shift2 (positions_6nt_m3)
; positions_6nt_m7 versus positions_6nt_m3; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.906781; --acrCACACACACACACACACACa ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_7nt_m7_shift2 (positions_7nt_m7)
; positions_6nt_m7 versus positions_7nt_m7; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.905653; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_6nt_m7 versus positions_7nt_m10; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90316; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_7nt_m4_shift2 (positions_7nt_m4)
; positions_6nt_m7 versus positions_7nt_m4; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.901113; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_6nt_m7 versus positions_6nt_m6; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.900059; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_6nt_m7 versus positions_6nt_m10; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.899983; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m7 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.878019; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_6nt_m7 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score=0.803906; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift4 (dyads_m10)
; positions_6nt_m7 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.736462; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0

oligos_7nt_mkv5_m8_shift4 (oligos_7nt_mkv5_m8)
; positions_6nt_m7 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=3; strand=D; shift=4; score=0.655536; ----ACACACACACACACAC----- ; cor=; Ncor= a 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 0 0 c 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 0 0 g 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 0 0 t 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0 0 0

oligos_6nt_mkv4_m2_shift3 (oligos_6nt_mkv4_m2)
; positions_6nt_m7 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=2; strand=D; shift=3; score=0.596497; ---caCwCACAyACACmca------ ; cor=; Ncor= a 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 0 c 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 0 g 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 0 t 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m7 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.594245; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

dyads_m3_shift8 (dyads_m3)
; positions_6nt_m7 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.528643; --------acAyACACACrCac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 c 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 g 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 t 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0

oligos_7nt_mkv5_m4_shift5 (oligos_7nt_mkv5_m4)
; positions_6nt_m7 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=4; strand=D; shift=5; score=0.52645; -----caCACAcACACac------- ; cor=; Ncor= a 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 c 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 g 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 t 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0

dyads_m7_shift8 (dyads_m7)
; positions_6nt_m7 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.512076; --------acAyACACACAyac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 c 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 g 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 t 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; positions_6nt_m7 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.486744; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift8 (dyads_m9)
; positions_6nt_m7 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=7; strand=D; shift=8; score=0.463207; --------acATACACACmca---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 c 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 g 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 t 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0

oligos_7nt_mkv5_m9_shift7 (oligos_7nt_mkv5_m9)
; positions_6nt_m7 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=6; strand=D; shift=7; score=0.424075; -------caCAsACACAAam----- ; cor=; Ncor= a 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 c 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 g 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 t 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m2_shift8 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=16; shift=8; ncol=24; --------caCwCACAyACACmca ; Alignment reference a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m2; m=1/33; ncol2=16; w=0; offset=0; strand=D; shift=8; score= 1; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)
; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m8; m=2/33; ncol2=16; w=0; offset=1; strand=D; shift=9; score=0.807829; ---------ACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929

dyads_m10_shift7 (dyads_m10)
; oligos_6nt_mkv4_m2 versus dyads_m10; m=3/33; ncol2=18; w=-1; offset=-1; strand=D; shift=7; score=0.79183; -------ACACACACACACACrCA ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902

oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)
; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m4; m=4/33; ncol2=13; w=0; offset=2; strand=D; shift=10; score=0.758749; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m5; m=5/33; ncol2=14; w=0; offset=2; strand=D; shift=10; score=0.719043; ----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m2_shift4 (dyads_m2)
; oligos_6nt_mkv4_m2 versus dyads_m2; m=6/33; ncol2=20; w=-4; offset=-4; strand=D; shift=4; score=0.71013; ----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

oligos_6nt_mkv4_m5_rc_shift7 (oligos_6nt_mkv4_m5_rc)
; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m5_rc; m=7/33; ncol2=16; w=-1; offset=-1; strand=R; shift=7; score=0.697932; -------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

dyads_m7_shift9 (dyads_m7)
; oligos_6nt_mkv4_m2 versus dyads_m7; m=8/33; ncol2=14; w=0; offset=1; strand=D; shift=9; score=0.680371; ---------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0

dyads_m3_shift9 (dyads_m3)
; oligos_6nt_mkv4_m2 versus dyads_m3; m=9/33; ncol2=14; w=0; offset=1; strand=D; shift=9; score=0.673448; ---------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

dyads_m9_shift11 (dyads_m9)
; oligos_6nt_mkv4_m2 versus dyads_m9; m=10/33; ncol2=13; w=0; offset=3; strand=D; shift=11; score=0.659322; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

positions_6nt_m4_rc_shift3 (positions_6nt_m4_rc)
; oligos_6nt_mkv4_m2 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=-5; offset=-5; strand=R; shift=3; score=0.620183; ---acACACACACACACACACACA ; cor=; Ncor= a 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 c 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 g 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 t 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481

positions_6nt_m1_shift2 (positions_6nt_m1)
; oligos_6nt_mkv4_m2 versus positions_6nt_m1; m=12/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.608752; --caCACACACACACACACACACa ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027

positions_7nt_m3_shift2 (positions_7nt_m3)
; oligos_6nt_mkv4_m2 versus positions_7nt_m3; m=13/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.604892; --cACACACACACACACACACACa ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364

positions_6nt_m3_shift1 (positions_6nt_m3)
; oligos_6nt_mkv4_m2 versus positions_6nt_m3; m=14/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.604861; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_7nt_m9_shift2 (positions_7nt_m9)
; oligos_6nt_mkv4_m2 versus positions_7nt_m9; m=15/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.603954; --caCACACACACACACACACACa ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974

positions_7nt_m8_shift7 (positions_7nt_m8)
; oligos_6nt_mkv4_m2 versus positions_7nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.602142; -------acaCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 c 0 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 g 0 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 t 0 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393

positions_7nt_m7_shift5 (positions_7nt_m7)
; oligos_6nt_mkv4_m2 versus positions_7nt_m7; m=17/33; ncol2=24; w=-3; offset=-3; strand=D; shift=5; score=0.60017; -----acaCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 c 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 g 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 t 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539

positions_6nt_m8_shift8 (positions_6nt_m8)
; oligos_6nt_mkv4_m2 versus positions_6nt_m8; m=18/33; ncol2=24; w=0; offset=0; strand=D; shift=8; score=0.597483; --------caCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 c 0 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 g 0 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 t 0 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354

positions_6nt_m7_shift6 (positions_6nt_m7)
; oligos_6nt_mkv4_m2 versus positions_6nt_m7; m=19/33; ncol2=24; w=-2; offset=-2; strand=D; shift=6; score=0.596497; ------cacamACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 c 0 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 g 0 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 t 0 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153

positions_6nt_m5_shift7 (positions_6nt_m5)
; oligos_6nt_mkv4_m2 versus positions_6nt_m5; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.596444; -------acamACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 c 0 0 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 g 0 0 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 t 0 0 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218

positions_7nt_m10_shift3 (positions_7nt_m10)
; oligos_6nt_mkv4_m2 versus positions_7nt_m10; m=21/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.596372; ---aCACACACACACACACACACA ; cor=; Ncor= a 0 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 c 0 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 g 0 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 t 0 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525

dyads_m8_shift0 (dyads_m8)
; oligos_6nt_mkv4_m2 versus dyads_m8; m=22/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.59519; cacACACACACACACACACACaca ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

dyads_m1_shift0 (dyads_m1)
; oligos_6nt_mkv4_m2 versus dyads_m1; m=23/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.595187; caCaCACACACACACACACACaca ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_6nt_m9_shift2 (positions_6nt_m9)
; oligos_6nt_mkv4_m2 versus positions_6nt_m9; m=24/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.593007; --cACACACACACACACACACACA ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831

positions_6nt_m6_shift1 (positions_6nt_m6)
; oligos_6nt_mkv4_m2 versus positions_6nt_m6; m=25/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.592896; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142

positions_7nt_m1_shift0 (positions_7nt_m1)
; oligos_6nt_mkv4_m2 versus positions_7nt_m1; m=26/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.592341; cacACACACACACACACACACACa ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_7nt_m4_shift1 (positions_7nt_m4)
; oligos_6nt_mkv4_m2 versus positions_7nt_m4; m=27/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.592034; -aCACACACACACACACACACAca ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m2_shift1 (positions_6nt_m2)
; oligos_6nt_mkv4_m2 versus positions_6nt_m2; m=28/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.591795; -mmmmmmaCACACrCACACACaCa ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657

positions_6nt_m10_shift3 (positions_6nt_m10)
; oligos_6nt_mkv4_m2 versus positions_6nt_m10; m=29/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.591061; ---aCACACACACACACACACACA ; cor=; Ncor= a 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 c 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 g 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 t 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930

positions_7nt_m6_shift0 (positions_7nt_m6)
; oligos_6nt_mkv4_m2 versus positions_7nt_m6; m=30/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.590436; caCACACACACACACACACACACa ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_7nt_m2_shift1 (positions_7nt_m2)
; oligos_6nt_mkv4_m2 versus positions_7nt_m2; m=31/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.587765; -aCAcACACACACACACACACACA ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703

positions_7nt_m5_shift3 (positions_7nt_m5)
; oligos_6nt_mkv4_m2 versus positions_7nt_m5; m=32/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.585988; ---acAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 c 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 g 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 t 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307

oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)
; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=2; strand=D; shift=10; score=0.576659; ----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: positions_7nt_m6_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_7nt_m6; m=0 (reference); ncol1=24; shift=1; ncol=25; -caCACACACACACACACACACACa ; Alignment reference a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_7nt_m6 versus positions_7nt_m6; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_7nt_m6 versus positions_6nt_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.995013; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_7nt_m6 versus positions_7nt_m9; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.994543; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

dyads_m8_shift1 (dyads_m8)
; positions_7nt_m6 versus dyads_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989796; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_7nt_m6 versus positions_6nt_m1; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989296; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

dyads_m1_shift1 (dyads_m1)
; positions_7nt_m6 versus dyads_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988812; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m6 versus positions_7nt_m1; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988134; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_7nt_m6 versus positions_6nt_m9; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986722; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_7nt_m6 versus positions_7nt_m3; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986373; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_7nt_m6 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985444; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_7nt_m6 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.946901; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m4_shift2 (positions_7nt_m4)
; positions_7nt_m6 versus positions_7nt_m4; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914389; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_7nt_m6 versus positions_7nt_m10; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912861; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_6nt_m6_shift2 (positions_6nt_m6)
; positions_7nt_m6 versus positions_6nt_m6; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.91213; --acaCacACACACACACACACACa ; cor=; Ncor= a 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_7nt_m6 versus positions_6nt_m10; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912055; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_7nt_m6 versus positions_6nt_m5; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.911639; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_7nt_m7_shift2 (positions_7nt_m7)
; positions_7nt_m6 versus positions_7nt_m7; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910452; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102

positions_7nt_m8_shift2 (positions_7nt_m8)
; positions_7nt_m6 versus positions_7nt_m8; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910424; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 c 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 g 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 t 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016

positions_7nt_m5_shift2 (positions_7nt_m5)
; positions_7nt_m6 versus positions_7nt_m5; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.91026; --acAcACACACACACACACACACa ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789

positions_7nt_m2_shift2 (positions_7nt_m2)
; positions_7nt_m6 versus positions_7nt_m2; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909898; --aCAcACACACACACACACACACA ; cor=; Ncor= a 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 c 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 g 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 t 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703

positions_6nt_m3_shift2 (positions_6nt_m3)
; positions_7nt_m6 versus positions_6nt_m3; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909138; --acrCACACACACACACACACACa ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_7nt_m6 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.868072; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_7nt_m6 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score=0.815559; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift6 (dyads_m10)
; positions_7nt_m6 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=5; strand=D; shift=6; score=0.739306; ------ACACACACACACACrCAC- ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; positions_7nt_m6 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.657339; --------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m6 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.60986; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; positions_7nt_m6 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.590436; ---------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_7nt_mkv5_m4_shift5 (oligos_7nt_mkv5_m4)
; positions_7nt_m6 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=4; strand=D; shift=5; score=0.522556; -----caCACAcACACac------- ; cor=; Ncor= a 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 c 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 g 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 t 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0

dyads_m3_shift6 (dyads_m3)
; positions_7nt_m6 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=5; strand=D; shift=6; score=0.519683; ------acAyACACACrCac----- ; cor=; Ncor= a 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 c 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 g 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 t 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0

dyads_m7_shift4 (dyads_m7)
; positions_7nt_m6 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.514855; ----acAyACACACAyac------- ; cor=; Ncor= a 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 0 0 0 c 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 0 0 0 g 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 0 0 0 t 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0 0 0 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; positions_7nt_m6 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.508167; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift4 (dyads_m9)
; positions_7nt_m6 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=3; strand=D; shift=4; score=0.455773; ----acATACACACmca-------- ; cor=; Ncor= a 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 0 c 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 0 g 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 0 t 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m9_shift3 (oligos_7nt_mkv5_m9)
; positions_7nt_m6 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.418788; ---caCAsACACAAam--------- ; cor=; Ncor= a 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 0 0 0 c 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 0 0 0 g 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 0 0 0 t 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m3_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m3_shift1 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=12; shift=1; ncol=13; -caCCAmCACCac ; Alignment reference a 0 537 1591 66 86 2670 1679 63 2659 69 354 1474 675 c 0 1526 481 2678 2677 71 919 2713 103 2669 2209 633 1190 g 0 300 368 59 42 43 104 15 52 63 104 430 431 t 0 489 412 49 47 68 150 61 38 51 185 315 556

oligos_7nt_mkv5_m3_shift1 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m3; m=1/3; ncol2=12; w=0; offset=0; strand=D; shift=1; score= 1; -caCCAmCACCac ; cor=; Ncor= a 0 537 1591 66 86 2670 1679 63 2659 69 354 1474 675 c 0 1526 481 2678 2677 71 919 2713 103 2669 2209 633 1190 g 0 300 368 59 42 43 104 15 52 63 104 430 431 t 0 489 412 49 47 68 150 61 38 51 185 315 556

oligos_6nt_mkv4_m4_shift2 (oligos_6nt_mkv4_m4)
; oligos_7nt_mkv5_m3 versus oligos_6nt_mkv4_m4; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.742798; --ammAACACCmc ; cor=; Ncor= a 0 0 603 434 886 1461 1470 34 1378 0 0 542 381 c 0 0 379 473 435 6 49 1453 126 1550 1575 416 540 g 0 0 284 341 132 31 32 32 22 11 3 328 294 t 0 0 322 340 135 90 37 69 62 27 10 302 373

dyads_m6_shift0 (dyads_m6)
; oligos_7nt_mkv5_m3 versus dyads_m6; m=3/3; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.669122; ccACCACCAcc-- ; cor=; Ncor= a 849 627 3918 50 30 4141 38 14 3899 676 705 0 0 c 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 0 0 g 690 543 129 102 115 126 110 85 188 692 474 0 0 t 681 894 234 208 231 102 266 247 146 935 795 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m10_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m10; m=0 (reference); ncol1=24; shift=1; ncol=25; -aCACACACACACACACACACACac ; Alignment reference a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m10 versus positions_7nt_m10; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m10 versus positions_7nt_m4; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993301; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_7nt_m10 versus positions_6nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989839; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m10 versus positions_7nt_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989491; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m10 versus positions_6nt_m3; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98916; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m10 versus positions_7nt_m7; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989114; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m10 versus positions_7nt_m5; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988301; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m10 versus positions_7nt_m2; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98793; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_7nt_m10 versus positions_6nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.981508; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_7nt_m10 versus positions_6nt_m5; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.979829; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m10 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.946686; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_7nt_m3_shift0 (positions_7nt_m3)
; positions_7nt_m10 versus positions_7nt_m3; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.915545; cACACACACACACACACACACaca- ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 0 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 0 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 0 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213 0

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_7nt_m10 versus positions_6nt_m9; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.915123; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_6nt_m8_shift0 (positions_6nt_m8)
; positions_7nt_m10 versus positions_6nt_m8; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914479; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m10 versus positions_6nt_m2; m=15/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.913729; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_7nt_m9_shift0 (positions_7nt_m9)
; positions_7nt_m10 versus positions_7nt_m9; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913311; caCACACACACACACACACACaca- ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 0 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 0 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 0 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341 0

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_7nt_m10 versus positions_7nt_m6; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912861; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

dyads_m8_shift0 (dyads_m8)
; positions_7nt_m10 versus dyads_m8; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912297; cacACACACACACACACACACaca- ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 0 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 0 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 0 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765 0

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m10 versus positions_7nt_m1; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912131; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0

dyads_m1_shift2 (dyads_m1)
; positions_7nt_m10 versus dyads_m1; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910712; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_6nt_m1_shift0 (positions_6nt_m1)
; positions_7nt_m10 versus positions_6nt_m1; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909851; caCACACACACACACACACACaca- ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 0 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 0 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 0 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111 0

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_7nt_m10 versus positions_6nt_m7; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.90316; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

dyads_m2_shift4 (dyads_m2)
; positions_7nt_m10 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=4; score=0.805419; ----camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0

dyads_m10_shift7 (dyads_m10)
; positions_7nt_m10 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=7; score=0.736358; -------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)
; positions_7nt_m10 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.661394; -------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0

oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m10 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.602339; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

oligos_6nt_mkv4_m2_shift6 (oligos_6nt_mkv4_m2)
; positions_7nt_m10 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.596372; ------caCwCACAyACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 c 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 g 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 t 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0

dyads_m7_shift11 (dyads_m7)
; positions_7nt_m10 versus dyads_m7; m=28/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.524148; -----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

oligos_7nt_mkv5_m4_shift8 (oligos_7nt_mkv5_m4)
; positions_7nt_m10 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=7; strand=D; shift=8; score=0.523934; --------caCACAcACACac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 c 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 g 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 t 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0

dyads_m3_shift11 (dyads_m3)
; positions_7nt_m10 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.514275; -----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

oligos_7nt_mkv5_m5_shift2 (oligos_7nt_mkv5_m5)
; positions_7nt_m10 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.500888; --caCACGCACACmca--------- ; cor=; Ncor= a 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 0 0 0 0 0 0 c 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 0 0 0 0 0 0 g 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 0 0 0 0 0 0 t 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0 0 0 0 0 0 0

dyads_m9_shift11 (dyads_m9)
; positions_7nt_m10 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.465071; -----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

oligos_7nt_mkv5_m9_shift12 (oligos_7nt_mkv5_m9)
; positions_7nt_m10 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.430118; ------------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

One-to-n matrix alignment; reference matrix: positions_6nt_m9_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_6nt_m9; m=0 (reference); ncol1=24; shift=1; ncol=25; -cACACACACACACACACACACAca ; Alignment reference a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_6nt_m9 versus positions_6nt_m9; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m9 versus positions_6nt_m1; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993629; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m9 versus positions_7nt_m3; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992166; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

dyads_m8_shift1 (dyads_m8)
; positions_6nt_m9 versus dyads_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991203; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_6nt_m9 versus positions_7nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991145; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

dyads_m1_shift1 (dyads_m1)
; positions_6nt_m9 versus dyads_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.99111; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_6nt_m9 versus positions_6nt_m8; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988297; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m9 versus positions_7nt_m1; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.987053; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_6nt_m9 versus positions_7nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986722; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_6nt_m9 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.968749; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_6nt_m9 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score= 0.9442; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m10_shift0 (positions_7nt_m10)
; positions_6nt_m9 versus positions_7nt_m10; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.915123; aCACACACACACACACACACACac- ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 0 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 0 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 0 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340 0

positions_7nt_m4_shift0 (positions_7nt_m4)
; positions_6nt_m9 versus positions_7nt_m4; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914814; aCACACACACACACACACACAcac- ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 0 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 0 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 0 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282 0

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_6nt_m9 versus positions_6nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913965; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m9 versus positions_6nt_m3; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913377; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0

positions_7nt_m8_shift0 (positions_7nt_m8)
; positions_6nt_m9 versus positions_7nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912164; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_7nt_m7_shift0 (positions_7nt_m7)
; positions_6nt_m9 versus positions_7nt_m7; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score= 0.9112; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m9 versus positions_7nt_m5; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.90973; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_6nt_m9 versus positions_7nt_m2; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.90912; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m9 versus positions_6nt_m5; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.905066; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_6nt_m9 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.900826; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m9 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.844957; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_6nt_m9 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score=0.807867; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift4 (dyads_m10)
; positions_6nt_m9 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.738974; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0

oligos_7nt_mkv5_m8_shift6 (oligos_7nt_mkv5_m8)
; positions_6nt_m9 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.660589; ------ACACACACACACACAC--- ; cor=; Ncor= a 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 c 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 g 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 t 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m9 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.603533; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; positions_6nt_m9 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.593007; -------caCwCACAyACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0

oligos_7nt_mkv5_m4_shift1 (oligos_7nt_mkv5_m4)
; positions_6nt_m9 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=0; strand=D; shift=1; score=0.530419; -caCACAcACACac----------- ; cor=; Ncor= a 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 0 0 c 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 0 0 g 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 0 0 t 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0 0 0

dyads_m7_shift10 (dyads_m7)
; positions_6nt_m9 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.524881; ----------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0

dyads_m3_shift10 (dyads_m3)
; positions_6nt_m9 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.513488; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; positions_6nt_m9 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.490452; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift10 (dyads_m9)
; positions_6nt_m9 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.463999; ----------acATACACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0

oligos_7nt_mkv5_m9_shift3 (oligos_7nt_mkv5_m9)
; positions_6nt_m9 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.430132; ---caCAsACACAAam--------- ; cor=; Ncor= a 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 0 0 0 c 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 0 0 0 g 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 0 0 0 t 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m8_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m8; m=0 (reference); ncol1=24; shift=1; ncol=25; -acaCACACACACACACACACACac ; Alignment reference a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m8 versus positions_7nt_m8; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_7nt_m8 versus positions_6nt_m5; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.99363; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m8 versus positions_7nt_m7; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992676; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m8 versus positions_6nt_m3; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9925; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m8 versus positions_7nt_m2; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989639; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m8 versus positions_7nt_m10; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989491; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m8 versus positions_7nt_m5; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988793; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m8 versus positions_7nt_m4; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988074; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_7nt_m8 versus positions_6nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985973; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_7nt_m8 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.978059; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m8 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.943945; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m8_shift2 (positions_6nt_m8)
; positions_7nt_m8 versus positions_6nt_m8; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.916292; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m8 versus positions_6nt_m2; m=13/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.916176; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_7nt_m8 versus positions_7nt_m3; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913707; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_7nt_m8 versus positions_6nt_m7; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913239; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

dyads_m1_shift2 (dyads_m1)
; positions_7nt_m8 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912995; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

dyads_m8_shift2 (dyads_m8)
; positions_7nt_m8 versus dyads_m8; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912698; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_7nt_m8 versus positions_6nt_m9; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912164; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_7nt_m8 versus positions_7nt_m6; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910424; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

positions_7nt_m9_shift2 (positions_7nt_m9)
; positions_7nt_m8 versus positions_7nt_m9; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909657; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m8 versus positions_7nt_m1; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908615; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_7nt_m8 versus positions_6nt_m1; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908187; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

dyads_m2_shift2 (dyads_m2)
; positions_7nt_m8 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.801902; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0

dyads_m10_shift3 (dyads_m10)
; positions_7nt_m8 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=2; strand=D; shift=3; score=0.739934; ---ACACACACACACACrCAC---- ; cor=; Ncor= a 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 c 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 g 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 t 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0

oligos_7nt_mkv5_m8_shift3 (oligos_7nt_mkv5_m8)
; positions_7nt_m8 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=2; strand=D; shift=3; score=0.659471; ---ACACACACACACACAC------ ; cor=; Ncor= a 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 0 0 0 c 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 0 0 0 g 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 0 0 0 t 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0 0 0 0

oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m8 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.614008; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

oligos_6nt_mkv4_m2_shift2 (oligos_6nt_mkv4_m2)
; positions_7nt_m8 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=1; strand=D; shift=2; score=0.602142; --caCwCACAyACACmca------- ; cor=; Ncor= a 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 0 0 c 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 0 0 g 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 0 0 t 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0 0 0

dyads_m3_shift7 (dyads_m3)
; positions_7nt_m8 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.527909; -------acAyACACACrCac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 c 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 g 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 t 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0

oligos_7nt_mkv5_m4_shift4 (oligos_7nt_mkv5_m4)
; positions_7nt_m8 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=3; strand=D; shift=4; score=0.524722; ----caCACAcACACac-------- ; cor=; Ncor= a 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 c 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 g 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 t 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0

dyads_m7_shift7 (dyads_m7)
; positions_7nt_m8 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.511426; -------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; positions_7nt_m8 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.484463; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m9_shift7 (dyads_m9)
; positions_7nt_m8 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=6; strand=D; shift=7; score=0.461864; -------acATACACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 c 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 g 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 t 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0

oligos_7nt_mkv5_m9_shift6 (oligos_7nt_mkv5_m9)
; positions_7nt_m8 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=5; strand=D; shift=6; score=0.423804; ------caCAsACACAAam------ ; cor=; Ncor= a 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 c 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 g 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 t 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m2; m=0 (reference); ncol1=24; shift=1; ncol=25; -aCAcACACACACACACACACACAC ; Alignment reference a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m2 versus positions_7nt_m2; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m2 versus positions_7nt_m5; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9907; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m2 versus positions_7nt_m8; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989639; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m2 versus positions_7nt_m7; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98897; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_7nt_m2 versus positions_6nt_m5; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.987944; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m2 versus positions_7nt_m10; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98793; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m2 versus positions_7nt_m4; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986226; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m2 versus positions_6nt_m3; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98506; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_7nt_m2 versus positions_6nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98381; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_7nt_m2 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977234; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m2 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.945272; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m2 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.918145; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_7nt_m2 versus positions_7nt_m1; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913133; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

dyads_m8_shift2 (dyads_m8)
; positions_7nt_m2 versus dyads_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913122; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_6nt_m8_shift2 (positions_6nt_m8)
; positions_7nt_m2 versus positions_6nt_m8; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911164; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239

dyads_m1_shift2 (dyads_m1)
; positions_7nt_m2 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910375; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_7nt_m2 versus positions_7nt_m3; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910059; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_7nt_m2 versus positions_7nt_m6; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909898; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_7nt_m2 versus positions_6nt_m9; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90912; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_7nt_m9_shift2 (positions_7nt_m9)
; positions_7nt_m2 versus positions_7nt_m9; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908633; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_7nt_m2 versus positions_6nt_m7; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.907567; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_7nt_m2 versus positions_6nt_m1; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90676; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

dyads_m2_shift2 (dyads_m2)
; positions_7nt_m2 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.806882; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0

dyads_m10_shift1 (dyads_m10)
; positions_7nt_m2 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.736552; -ACACACACACACACrCAC------ ; cor=; Ncor= a 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 0 0 c 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 0 0 g 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 0 0 t 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0 0 0

oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)
; positions_7nt_m2 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.655269; ---------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_6nt_mkv4_m5_rc_shift3 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m2 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=2; strand=R; shift=3; score=0.608155; ---acAsACACrCACAsac------ ; cor=; Ncor= a 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 0 0 c 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 0 0 g 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 0 0 t 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0 0 0

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; positions_7nt_m2 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.587765; --------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

dyads_m3_shift1 (dyads_m3)
; positions_7nt_m2 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=0; strand=D; shift=1; score=0.527972; -acAyACACACrCac---------- ; cor=; Ncor= a 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 0 0 0 c 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 0 0 0 g 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 0 0 0 t 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m4_shift12 (oligos_7nt_mkv5_m4)
; positions_7nt_m2 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.526509; ------------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

dyads_m7_shift7 (dyads_m7)
; positions_7nt_m2 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.514169; -------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0

oligos_7nt_mkv5_m5_shift6 (oligos_7nt_mkv5_m5)
; positions_7nt_m2 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=5; strand=D; shift=6; score=0.498496; ------caCACGCACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 0 0 c 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 0 0 g 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 0 0 t 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0 0 0

dyads_m9_shift1 (dyads_m9)
; positions_7nt_m2 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=0; strand=D; shift=1; score=0.462744; -acATACACACmca----------- ; cor=; Ncor= a 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 0 0 0 0 c 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 0 0 0 0 g 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 0 0 0 0 t 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m9_shift8 (oligos_7nt_mkv5_m9)
; positions_7nt_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=7; strand=D; shift=8; score=0.417907; --------caCAsACACAAam---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 c 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 g 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 t 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift2 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --maAACACAAmm ; Alignment reference a 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 329 421 49 57 114 35 99 92 54 457 315

oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --maAACACAAmm ; cor=; Ncor= a 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 329 421 49 57 114 35 99 92 54 457 315

oligos_7nt_mkv5_m9_shift0 (oligos_7nt_mkv5_m9)
; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m9; m=2/3; ncol2=13; w=-2; offset=-2; strand=D; shift=0; score=0.64976; caCAsACACAAam ; cor=; Ncor= a 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 284 218 140 71 96 15 49 13 26 35 42 323 270

oligos_6nt_mkv4_m4_shift1 (oligos_6nt_mkv4_m4)
; oligos_7nt_mkv5_m1 versus oligos_6nt_mkv4_m4; m=3/3; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.586311; -ammAACACCmc- ; cor=; Ncor= a 0 603 434 886 1461 1470 34 1378 0 0 542 381 0 c 0 379 473 435 6 49 1453 126 1550 1575 416 540 0 g 0 284 341 132 31 32 32 22 11 3 328 294 0 t 0 322 340 135 90 37 69 62 27 10 302 373 0

One-to-n matrix alignment; reference matrix: dyads_m6_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m6_shift1 (dyads_m6)
; dyads_m6; m=0 (reference); ncol1=11; shift=1; ncol=12; -ccACCACCAcc ; Alignment reference a 0 849 627 3918 50 30 4141 38 14 3899 676 705 c 0 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 g 0 690 543 129 102 115 126 110 85 188 692 474 t 0 681 894 234 208 231 102 266 247 146 935 795

dyads_m6_shift1 (dyads_m6)
; dyads_m6 versus dyads_m6; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ccACCACCAcc ; cor=; Ncor= a 0 849 627 3918 50 30 4141 38 14 3899 676 705 c 0 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 g 0 690 543 129 102 115 126 110 85 188 692 474 t 0 681 894 234 208 231 102 266 247 146 935 795

oligos_6nt_mkv4_m1_shift1 (oligos_6nt_mkv4_m1)
; dyads_m6 versus oligos_6nt_mkv4_m1; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.706608; -cycCCACAAmm ; cor=; Ncor= a 0 354 335 306 0 2 1250 50 1267 1364 427 379 c 0 516 530 804 1437 1382 94 1304 72 17 444 541 g 0 254 207 179 0 16 42 44 36 33 264 277 t 0 320 372 155 7 44 58 46 69 30 309 247

oligos_7nt_mkv5_m3_shift2 (oligos_7nt_mkv5_m3)
; dyads_m6 versus oligos_7nt_mkv5_m3; m=3/4; ncol2=12; w=0; offset=1; strand=D; shift=2; score=0.669122; --caCCAmCACC ; cor=; Ncor= a 0 0 537 1591 66 86 2670 1679 63 2659 69 354 c 0 0 1526 481 2678 2677 71 919 2713 103 2669 2209 g 0 0 300 368 59 42 43 104 15 52 63 104 t 0 0 489 412 49 47 68 150 61 38 51 185

oligos_6nt_mkv4_m4_shift0 (oligos_6nt_mkv4_m4)
; dyads_m6 versus oligos_6nt_mkv4_m4; m=4/4; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.593343; ammAACACCmc- ; cor=; Ncor= a 603 434 886 1461 1470 34 1378 0 0 542 381 0 c 379 473 435 6 49 1453 126 1550 1575 416 540 0 g 284 341 132 31 32 32 22 11 3 328 294 0 t 322 340 135 90 37 69 62 27 10 302 373 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2)
; oligos_7nt_mkv5_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; hhCCACACCmm ; Alignment reference a 610 665 56 47 1899 120 1884 31 37 665 597 c 779 651 2175 2075 185 2039 272 2139 2175 670 740 g 352 414 33 72 129 81 56 70 39 560 463 t 597 608 74 144 125 98 126 98 87 443 538

oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2)
; oligos_7nt_mkv5_m2 versus oligos_7nt_mkv5_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; hhCCACACCmm ; cor=; Ncor= a 610 665 56 47 1899 120 1884 31 37 665 597 c 779 651 2175 2075 185 2039 272 2139 2175 670 740 g 352 414 33 72 129 81 56 70 39 560 463 t 597 608 74 144 125 98 126 98 87 443 538

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m8_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m8_shift0 (oligos_6nt_mkv4_m8)
; oligos_6nt_mkv4_m8; m=0 (reference); ncol1=10; shift=0; ncol=10; mrCAAAACam ; Alignment reference a 588 575 0 1505 1527 1517 1531 0 700 535 c 401 285 1520 0 0 0 0 1533 288 428 g 275 408 0 3 0 1 0 0 317 327 t 269 265 13 25 6 15 2 0 228 243

oligos_6nt_mkv4_m8_shift0 (oligos_6nt_mkv4_m8)
; oligos_6nt_mkv4_m8 versus oligos_6nt_mkv4_m8; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; mrCAAAACam ; cor=; Ncor= a 588 575 0 1505 1527 1517 1531 0 700 535 c 401 285 1520 0 0 0 0 1533 288 428 g 275 408 0 3 0 1 0 0 317 327 t 269 265 13 25 6 15 2 0 228 243

One-to-n matrix alignment; reference matrix: positions_7nt_m5_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m5; m=0 (reference); ncol1=24; shift=1; ncol=25; -acAcACACACACACACACACACac ; Alignment reference a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m5 versus positions_7nt_m5; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_7nt_m5 versus positions_6nt_m10; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992918; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m5 versus positions_7nt_m2; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9907; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m5 versus positions_7nt_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988793; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m5 versus positions_7nt_m7; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988678; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_7nt_m5 versus positions_6nt_m5; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988476; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m5 versus positions_7nt_m10; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988301; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m5 versus positions_7nt_m4; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986441; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m5 versus positions_6nt_m3; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98513; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_7nt_m5 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977196; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m5 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.945349; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m5 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.92956; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_7nt_m5 versus positions_7nt_m1; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914778; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

dyads_m8_shift2 (dyads_m8)
; positions_7nt_m5 versus dyads_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914455; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_7nt_m5 versus positions_7nt_m6; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91026; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

dyads_m1_shift2 (dyads_m1)
; positions_7nt_m5 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910255; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_6nt_m8_shift2 (positions_6nt_m8)
; positions_7nt_m5 versus positions_6nt_m8; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909855; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_7nt_m5 versus positions_6nt_m9; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90973; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_7nt_m5 versus positions_7nt_m3; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909596; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_7nt_m5 versus positions_6nt_m7; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909422; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

positions_7nt_m9_shift0 (positions_7nt_m9)
; positions_7nt_m5 versus positions_7nt_m9; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908105; caCACACACACACACACACACaca- ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 0 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 0 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 0 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341 0

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_7nt_m5 versus positions_6nt_m1; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90756; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

dyads_m2_shift2 (dyads_m2)
; positions_7nt_m5 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.811137; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0

dyads_m10_shift3 (dyads_m10)
; positions_7nt_m5 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=2; strand=D; shift=3; score=0.736751; ---ACACACACACACACrCAC---- ; cor=; Ncor= a 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 c 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 g 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 t 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0

oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)
; positions_7nt_m5 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.656823; -------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0

oligos_6nt_mkv4_m5_rc_shift5 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m5 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=4; strand=R; shift=5; score=0.60839; -----acAsACACrCACAsac---- ; cor=; Ncor= a 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 c 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 g 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 t 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0

oligos_6nt_mkv4_m2_shift6 (oligos_6nt_mkv4_m2)
; positions_7nt_m5 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.585988; ------caCwCACAyACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 c 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 g 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 t 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0

oligos_7nt_mkv5_m4_shift12 (oligos_7nt_mkv5_m4)
; positions_7nt_m5 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.521994; ------------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

dyads_m3_shift3 (dyads_m3)
; positions_7nt_m5 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=2; strand=D; shift=3; score=0.518182; ---acAyACACACrCac-------- ; cor=; Ncor= a 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 0 c 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 0 g 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 0 t 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0 0

dyads_m7_shift9 (dyads_m7)
; positions_7nt_m5 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=8; strand=D; shift=9; score=0.516083; ---------acAyACACACAyac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0

oligos_7nt_mkv5_m5_shift8 (oligos_7nt_mkv5_m5)
; positions_7nt_m5 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.501474; --------caCACGCACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 c 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 g 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 t 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0

dyads_m9_shift1 (dyads_m9)
; positions_7nt_m5 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=0; strand=D; shift=1; score=0.455053; -acATACACACmca----------- ; cor=; Ncor= a 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 0 0 0 0 c 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 0 0 0 0 g 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 0 0 0 0 t 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)
; positions_7nt_m5 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.421334; ----------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0

One-to-n matrix alignment; reference matrix: dyads_m1_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m1_shift1 (dyads_m1)
; dyads_m1; m=0 (reference); ncol1=24; shift=1; ncol=25; -caCaCACACACACACACACACaca ; Alignment reference a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

dyads_m1_shift1 (dyads_m1)
; dyads_m1 versus dyads_m1; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

dyads_m8_shift1 (dyads_m8)
; dyads_m1 versus dyads_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.996351; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m3_shift1 (positions_7nt_m3)
; dyads_m1 versus positions_7nt_m3; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992979; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_7nt_m9_shift1 (positions_7nt_m9)
; dyads_m1 versus positions_7nt_m9; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992536; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_6nt_m9_shift1 (positions_6nt_m9)
; dyads_m1 versus positions_6nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.99111; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m1_shift1 (positions_6nt_m1)
; dyads_m1 versus positions_6nt_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.990807; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m8_shift1 (positions_6nt_m8)
; dyads_m1 versus positions_6nt_m8; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989754; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m6_shift1 (positions_7nt_m6)
; dyads_m1 versus positions_7nt_m6; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988812; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_7nt_m1_shift1 (positions_7nt_m1)
; dyads_m1 versus positions_7nt_m1; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988568; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_6nt_m7_shift1 (positions_6nt_m7)
; dyads_m1 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977538; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; dyads_m1 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score= 0.9511; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m8_shift0 (positions_7nt_m8)
; dyads_m1 versus positions_7nt_m8; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912995; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_7nt_m7_shift0 (positions_7nt_m7)
; dyads_m1 versus positions_7nt_m7; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912933; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0

positions_6nt_m10_shift2 (positions_6nt_m10)
; dyads_m1 versus positions_6nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911324; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_7nt_m10_shift0 (positions_7nt_m10)
; dyads_m1 versus positions_7nt_m10; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910712; aCACACACACACACACACACACac- ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 0 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 0 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 0 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340 0

positions_7nt_m2_shift0 (positions_7nt_m2)
; dyads_m1 versus positions_7nt_m2; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910375; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_6nt_m3_shift0 (positions_6nt_m3)
; dyads_m1 versus positions_6nt_m3; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91034; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0

positions_7nt_m5_shift0 (positions_7nt_m5)
; dyads_m1 versus positions_7nt_m5; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910255; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_7nt_m4_shift2 (positions_7nt_m4)
; dyads_m1 versus positions_7nt_m4; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909832; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m6_shift0 (positions_6nt_m6)
; dyads_m1 versus positions_6nt_m6; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908829; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m5_shift0 (positions_6nt_m5)
; dyads_m1 versus positions_6nt_m5; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908686; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; dyads_m1 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.864772; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift3 (dyads_m2)
; dyads_m1 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=2; strand=D; shift=3; score=0.812587; ---camACACACACACACACaca-- ; cor=; Ncor= a 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 c 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 g 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 t 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0

dyads_m10_shift4 (dyads_m10)
; dyads_m1 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.740027; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; dyads_m1 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.658892; --------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; dyads_m1 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.600475; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; dyads_m1 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.595187; ---------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; dyads_m1 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.523469; ---caCACAcACACac--------- ; cor=; Ncor= a 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 c 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 g 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 t 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0

dyads_m3_shift10 (dyads_m3)
; dyads_m1 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.51351; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

dyads_m7_shift10 (dyads_m7)
; dyads_m1 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.510152; ----------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; dyads_m1 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.496459; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift12 (dyads_m9)
; dyads_m1 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.459694; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; dyads_m1 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.421586; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: dyads_m5_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m5_shift1 (dyads_m5)
; dyads_m5; m=0 (reference); ncol1=14; shift=1; ncol=15; -agCAGCAGCAGCag ; Alignment reference a 0 3023 732 205 4256 205 120 4427 196 120 4310 275 188 3102 833 c 0 572 721 4047 152 229 4354 108 164 4365 138 232 4152 534 744 g 0 704 2845 257 245 4149 96 157 4245 93 192 4045 171 729 2643 t 0 468 469 258 114 184 197 75 162 189 127 215 256 402 547

dyads_m5_shift1 (dyads_m5)
; dyads_m5 versus dyads_m5; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=1; score= 1; -agCAGCAGCAGCag ; cor=; Ncor= a 0 3023 732 205 4256 205 120 4427 196 120 4310 275 188 3102 833 c 0 572 721 4047 152 229 4354 108 164 4365 138 232 4152 534 744 g 0 704 2845 257 245 4149 96 157 4245 93 192 4045 171 729 2643 t 0 468 469 258 114 184 197 75 162 189 127 215 256 402 547

oligos_7nt_mkv5_m6_rc_shift0 (oligos_7nt_mkv5_m6_rc)
; dyads_m5 versus oligos_7nt_mkv5_m6_rc; m=2/2; ncol2=17; w=-1; offset=-1; strand=R; shift=0; score=0.799748; carCAGCArCAGCAs ; cor=; Ncor= a 317 1470 736 58 2042 101 41 2098 746 43 2085 110 44 2026 202 c 1342 279 200 2015 51 89 2098 35 102 2073 50 113 2066 45 770 g 291 261 1155 82 68 1972 40 37 1312 44 38 1919 31 82 1115 t 250 190 109 45 39 38 21 30 40 40 27 58 59 47 113

One-to-n matrix alignment; reference matrix: dyads_m8_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m8_shift1 (dyads_m8)
; dyads_m8; m=0 (reference); ncol1=24; shift=1; ncol=25; -cacACACACACACACACACACaca ; Alignment reference a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

dyads_m8_shift1 (dyads_m8)
; dyads_m8 versus dyads_m8; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

dyads_m1_shift1 (dyads_m1)
; dyads_m8 versus dyads_m1; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.996351; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_7nt_m9_shift1 (positions_7nt_m9)
; dyads_m8 versus positions_7nt_m9; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993808; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_7nt_m1_shift1 (positions_7nt_m1)
; dyads_m8 versus positions_7nt_m1; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993368; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_6nt_m1_shift1 (positions_6nt_m1)
; dyads_m8 versus positions_6nt_m1; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992491; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m8_shift1 (positions_6nt_m8)
; dyads_m8 versus positions_6nt_m8; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992279; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m3_shift1 (positions_7nt_m3)
; dyads_m8 versus positions_7nt_m3; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991956; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_6nt_m9_shift1 (positions_6nt_m9)
; dyads_m8 versus positions_6nt_m9; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991203; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_7nt_m6_shift1 (positions_7nt_m6)
; dyads_m8 versus positions_7nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989796; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m7_shift1 (positions_6nt_m7)
; dyads_m8 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980411; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; dyads_m8 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.951717; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m5_shift0 (positions_7nt_m5)
; dyads_m8 versus positions_7nt_m5; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914455; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_6nt_m5_shift0 (positions_6nt_m5)
; dyads_m8 versus positions_6nt_m5; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914144; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_6nt_m10_shift2 (positions_6nt_m10)
; dyads_m8 versus positions_6nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913599; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_7nt_m2_shift0 (positions_7nt_m2)
; dyads_m8 versus positions_7nt_m2; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913122; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_7nt_m7_shift0 (positions_7nt_m7)
; dyads_m8 versus positions_7nt_m7; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91296; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0

positions_7nt_m8_shift0 (positions_7nt_m8)
; dyads_m8 versus positions_7nt_m8; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912698; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_7nt_m10_shift2 (positions_7nt_m10)
; dyads_m8 versus positions_7nt_m10; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912297; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_7nt_m4_shift2 (positions_7nt_m4)
; dyads_m8 versus positions_7nt_m4; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912237; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m3_shift0 (positions_6nt_m3)
; dyads_m8 versus positions_6nt_m3; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909791; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0

positions_6nt_m6_shift0 (positions_6nt_m6)
; dyads_m8 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908007; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; dyads_m8 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.869946; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift3 (dyads_m2)
; dyads_m8 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=2; strand=D; shift=3; score=0.813645; ---camACACACACACACACaca-- ; cor=; Ncor= a 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 c 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 g 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 t 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0

dyads_m10_shift4 (dyads_m10)
; dyads_m8 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.740888; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0

oligos_7nt_mkv5_m8_shift6 (oligos_7nt_mkv5_m8)
; dyads_m8 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.659078; ------ACACACACACACACAC--- ; cor=; Ncor= a 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 c 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 g 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 t 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; dyads_m8 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.600145; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; dyads_m8 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.59519; ---------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; dyads_m8 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.524165; ---caCACAcACACac--------- ; cor=; Ncor= a 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 c 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 g 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 t 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0

dyads_m3_shift10 (dyads_m3)
; dyads_m8 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.513508; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

dyads_m7_shift10 (dyads_m7)
; dyads_m8 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.510348; ----------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; dyads_m8 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.496063; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift12 (dyads_m9)
; dyads_m8 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.460028; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; dyads_m8 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.422022; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: dyads_m7_shift10 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m7_shift10 (dyads_m7)
; dyads_m7; m=0 (reference); ncol1=14; shift=10; ncol=24; ----------acAyACACACAyac ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m7_shift10 (dyads_m7)
; dyads_m7 versus dyads_m7; m=1/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score= 1; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m3_shift10 (dyads_m3)
; dyads_m7 versus dyads_m3; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score=0.875018; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

dyads_m9_shift10 (dyads_m9)
; dyads_m7 versus dyads_m9; m=3/33; ncol2=13; w=0; offset=0; strand=D; shift=10; score=0.847495; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)
; dyads_m7 versus oligos_7nt_mkv5_m4; m=4/33; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.781989; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; dyads_m7 versus oligos_7nt_mkv5_m8; m=5/33; ncol2=16; w=-2; offset=-2; strand=D; shift=8; score=0.771124; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; dyads_m7 versus oligos_6nt_mkv4_m5_rc; m=6/33; ncol2=16; w=-2; offset=-2; strand=R; shift=8; score=0.714257; --------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; dyads_m7 versus oligos_7nt_mkv5_m9; m=7/33; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.702162; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

dyads_m10_shift10 (dyads_m10)
; dyads_m7 versus dyads_m10; m=8/33; ncol2=18; w=0; offset=0; strand=D; shift=10; score=0.69727; ----------ACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 c 0 0 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 g 0 0 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 t 0 0 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; dyads_m7 versus oligos_6nt_mkv4_m2; m=9/33; ncol2=16; w=-1; offset=-1; strand=D; shift=9; score=0.680371; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362

oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)
; dyads_m7 versus oligos_7nt_mkv5_m5; m=10/33; ncol2=14; w=-1; offset=-1; strand=D; shift=9; score=0.64277; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m2_shift5 (dyads_m2)
; dyads_m7 versus dyads_m2; m=11/33; ncol2=20; w=-5; offset=-5; strand=D; shift=5; score=0.602065; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; dyads_m7 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=-8; offset=-8; strand=R; shift=2; score=0.529623; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940

positions_6nt_m1_shift7 (positions_6nt_m1)
; dyads_m7 versus positions_6nt_m1; m=13/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.525649; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 c 0 0 0 0 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 g 0 0 0 0 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 t 0 0 0 0 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322

positions_6nt_m9_shift1 (positions_6nt_m9)
; dyads_m7 versus positions_6nt_m9; m=14/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.524881; -cACACACACACACACACACACAc ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_7nt_m10_shift0 (positions_7nt_m10)
; dyads_m7 versus positions_7nt_m10; m=15/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.524148; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m9_shift7 (positions_7nt_m9)
; dyads_m7 versus positions_7nt_m9; m=16/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.523454; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 c 0 0 0 0 0 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 g 0 0 0 0 0 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 t 0 0 0 0 0 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399

positions_7nt_m5_shift2 (positions_7nt_m5)
; dyads_m7 versus positions_7nt_m5; m=17/33; ncol2=24; w=-8; offset=-8; strand=D; shift=2; score=0.516083; --acAcACACACACACACACACAC ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599

positions_7nt_m1_shift3 (positions_7nt_m1)
; dyads_m7 versus positions_7nt_m1; m=18/33; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.515957; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 c 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 g 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 t 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570

positions_7nt_m6_shift7 (positions_7nt_m6)
; dyads_m7 versus positions_7nt_m6; m=19/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.514855; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 c 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 g 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 t 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567

positions_6nt_m3_shift0 (positions_6nt_m3)
; dyads_m7 versus positions_6nt_m3; m=20/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.514408; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m2_shift4 (positions_7nt_m2)
; dyads_m7 versus positions_7nt_m2; m=21/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.514169; ----aCAcACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 c 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 g 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 t 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305

positions_6nt_m10_shift2 (positions_6nt_m10)
; dyads_m7 versus positions_6nt_m10; m=22/33; ncol2=24; w=-8; offset=-8; strand=D; shift=2; score=0.51389; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246

positions_7nt_m4_shift0 (positions_7nt_m4)
; dyads_m7 versus positions_7nt_m4; m=23/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.513508; aCACACACACACACACACACAcac ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m3_shift7 (positions_7nt_m3)
; dyads_m7 versus positions_7nt_m3; m=24/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.51303; -------cACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 c 0 0 0 0 0 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 g 0 0 0 0 0 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 t 0 0 0 0 0 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395

positions_6nt_m7_shift3 (positions_6nt_m7)
; dyads_m7 versus positions_6nt_m7; m=25/33; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.512076; ---cacamACACACACACACACAC ; cor=; Ncor= a 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 c 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 g 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 t 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153

positions_6nt_m5_shift4 (positions_6nt_m5)
; dyads_m7 versus positions_6nt_m5; m=26/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.512022; ----acamACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 c 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 g 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 t 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221

positions_6nt_m8_shift5 (positions_6nt_m8)
; dyads_m7 versus positions_6nt_m8; m=27/33; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.511823; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 c 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 g 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 t 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475

positions_7nt_m8_shift4 (positions_7nt_m8)
; dyads_m7 versus positions_7nt_m8; m=28/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.511426; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 c 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 g 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 t 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471

positions_7nt_m7_shift10 (positions_7nt_m7)
; dyads_m7 versus positions_7nt_m7; m=29/33; ncol2=24; w=0; offset=0; strand=D; shift=10; score=0.510815; ----------acaCACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 c 0 0 0 0 0 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 g 0 0 0 0 0 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 t 0 0 0 0 0 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355

dyads_m8_shift1 (dyads_m8)
; dyads_m7 versus dyads_m8; m=30/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.510348; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

dyads_m1_shift1 (dyads_m1)
; dyads_m7 versus dyads_m1; m=31/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.510152; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_6nt_m6_shift0 (positions_6nt_m6)
; dyads_m7 versus positions_6nt_m6; m=32/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.506416; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m2_shift0 (positions_6nt_m2)
; dyads_m7 versus positions_6nt_m2; m=33/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.50279; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m6_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m6_shift0 (oligos_7nt_mkv5_m6)
; oligos_7nt_mkv5_m6; m=0 (reference); ncol1=17; shift=0; ncol=17; tgsTGCTGyTGCTGytg ; Alignment reference a 167 226 113 47 59 58 27 40 40 30 21 38 39 45 109 190 250 c 335 230 1115 82 31 1919 38 44 1312 37 40 1972 68 82 1155 261 291 g 355 1425 770 45 2066 113 50 2073 102 35 2098 89 51 2015 200 279 1342 t 1343 319 202 2026 44 110 2085 43 746 2098 41 101 2042 58 736 1470 317

oligos_7nt_mkv5_m6_shift0 (oligos_7nt_mkv5_m6)
; oligos_7nt_mkv5_m6 versus oligos_7nt_mkv5_m6; m=1/2; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; tgsTGCTGyTGCTGytg ; cor=; Ncor= a 167 226 113 47 59 58 27 40 40 30 21 38 39 45 109 190 250 c 335 230 1115 82 31 1919 38 44 1312 37 40 1972 68 82 1155 261 291 g 355 1425 770 45 2066 113 50 2073 102 35 2098 89 51 2015 200 279 1342 t 1343 319 202 2026 44 110 2085 43 746 2098 41 101 2042 58 736 1470 317

dyads_m5_rc_shift2 (dyads_m5_rc)
; oligos_7nt_mkv5_m6 versus dyads_m5_rc; m=2/2; ncol2=14; w=0; offset=2; strand=R; shift=2; score=0.799748; --ctGCTGCTGCTGct- ; cor=; Ncor= a 0 0 547 402 256 215 127 189 162 75 197 184 114 258 469 468 0 c 0 0 2643 729 171 4045 192 93 4245 157 96 4149 245 257 2845 704 0 g 0 0 744 534 4152 232 138 4365 164 108 4354 229 152 4047 721 572 0 t 0 0 833 3102 188 275 4310 120 196 4427 120 205 4256 205 732 3023 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m4_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m4_shift1 (oligos_6nt_mkv4_m4)
; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -ammAACACCmc ; Alignment reference a 0 603 434 886 1461 1470 34 1378 0 0 542 381 c 0 379 473 435 6 49 1453 126 1550 1575 416 540 g 0 284 341 132 31 32 32 22 11 3 328 294 t 0 322 340 135 90 37 69 62 27 10 302 373

oligos_6nt_mkv4_m4_shift1 (oligos_6nt_mkv4_m4)
; oligos_6nt_mkv4_m4 versus oligos_6nt_mkv4_m4; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ammAACACCmc ; cor=; Ncor= a 0 603 434 886 1461 1470 34 1378 0 0 542 381 c 0 379 473 435 6 49 1453 126 1550 1575 416 540 g 0 284 341 132 31 32 32 22 11 3 328 294 t 0 322 340 135 90 37 69 62 27 10 302 373

oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)
; oligos_6nt_mkv4_m4 versus oligos_7nt_mkv5_m3; m=2/4; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.742798; caCCAmCACCac ; cor=; Ncor= a 537 1591 66 86 2670 1679 63 2659 69 354 1474 675 c 1526 481 2678 2677 71 919 2713 103 2669 2209 633 1190 g 300 368 59 42 43 104 15 52 63 104 430 431 t 489 412 49 47 68 150 61 38 51 185 315 556

dyads_m6_shift2 (dyads_m6)
; oligos_6nt_mkv4_m4 versus dyads_m6; m=3/4; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.593343; --ccACCACCAc ; cor=; Ncor= a 0 0 849 627 3918 50 30 4141 38 14 3899 676 c 0 0 2252 2408 191 4112 4096 103 4058 4126 239 2169 g 0 0 690 543 129 102 115 126 110 85 188 692 t 0 0 681 894 234 208 231 102 266 247 146 935

oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)
; oligos_6nt_mkv4_m4 versus oligos_7nt_mkv5_m1; m=4/4; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.586311; --maAACACAAm ; cor=; Ncor= a 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 c 0 0 544 437 1 22 1609 67 1586 57 20 518 g 0 0 384 449 28 54 61 58 114 51 39 350 t 0 0 329 421 49 57 114 35 99 92 54 457

One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_6nt_m4; m=0 (reference); ncol1=23; shift=1; ncol=24; -tgTGTGTGTGTGTGTGTGTGTgt ; Alignment reference a 0 1869 1940 1481 1344 1840 623 372 436 277 498 231 457 573 405 426 408 499 528 1543 1258 1354 1867 1856 c 0 2802 1645 2135 1065 1900 370 599 151 686 134 463 155 2637 178 555 155 837 257 1774 699 1813 1200 2286 g 0 1953 10414 1328 12216 827 14220 213 14801 85 14762 73 14723 251 14711 140 14693 207 14293 911 12206 1415 10347 2259 t 0 8945 1570 10625 944 11002 356 14385 181 14521 175 14802 234 12108 275 14448 313 14026 491 11341 1406 10987 2155 9168

positions_6nt_m4_shift1 (positions_6nt_m4)
; positions_6nt_m4 versus positions_6nt_m4; m=1/33; ncol2=23; w=0; offset=0; strand=D; shift=1; score= 1; -tgTGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 0 1869 1940 1481 1344 1840 623 372 436 277 498 231 457 573 405 426 408 499 528 1543 1258 1354 1867 1856 c 0 2802 1645 2135 1065 1900 370 599 151 686 134 463 155 2637 178 555 155 837 257 1774 699 1813 1200 2286 g 0 1953 10414 1328 12216 827 14220 213 14801 85 14762 73 14723 251 14711 140 14693 207 14293 911 12206 1415 10347 2259 t 0 8945 1570 10625 944 11002 356 14385 181 14521 175 14802 234 12108 275 14448 313 14026 491 11341 1406 10987 2155 9168

dyads_m8_rc_shift1 (dyads_m8_rc)
; positions_6nt_m4 versus dyads_m8_rc; m=2/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.951717; -tgtGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 0 1765 1875 1252 1018 723 819 410 710 289 645 246 574 282 550 300 555 332 645 460 844 712 1507 1469 c 0 2869 1726 3745 819 1373 462 1093 313 745 262 637 209 557 197 592 223 649 314 934 438 1235 869 2091 g 0 1857 10264 1125 12885 530 13684 266 14072 170 14210 129 14354 122 14348 177 14205 246 13798 457 13137 1015 9925 2187 t 0 8918 1544 9287 687 12783 444 13640 314 14205 292 14397 272 14448 314 14340 426 14182 652 13558 990 12447 3108 9662

dyads_m1_rc_shift1 (dyads_m1_rc)
; positions_6nt_m4 versus dyads_m1_rc; m=3/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score= 0.9511; -tgtGTGTGTGTGTGTGTGTGtGt ; cor=; Ncor= a 0 1761 1900 1262 1017 719 776 416 710 305 619 265 559 286 519 303 528 375 622 547 841 1010 1184 1576 c 0 2869 1699 3714 799 1375 453 1076 316 778 250 646 215 577 195 601 199 840 252 1059 380 3187 650 2297 g 0 1821 10161 1103 12789 530 13607 285 13915 162 14125 120 14219 116 14223 154 14154 248 13883 394 13299 996 12212 1805 t 0 8820 1511 9192 666 12647 435 13494 330 14026 277 14240 278 14292 334 14213 390 13808 514 13271 751 10078 1225 9593

positions_7nt_m7_rc_shift0 (positions_7nt_m7_rc)
; positions_6nt_m4 versus positions_7nt_m7_rc; m=4/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.949186; gtGTGTGTGTGTGTGTGTGTGtgt ; cor=; Ncor= a 1292 1102 651 494 600 539 530 262 437 164 355 164 1356 186 379 210 368 236 456 376 662 850 1393 1227 c 1313 2014 513 974 303 2504 268 566 151 521 148 313 258 346 140 312 148 437 183 606 283 1472 847 1549 g 7524 985 9636 353 10067 348 10237 139 10478 73 10644 124 9231 118 10557 121 10497 179 10278 348 9662 1409 7471 1608 t 1139 7167 468 9447 298 7877 233 10301 202 10510 121 10667 423 10618 192 10625 255 10416 351 9938 661 7537 1557 6884

positions_7nt_m9_rc_shift1 (positions_7nt_m9_rc)
; positions_6nt_m4 versus positions_7nt_m9_rc; m=5/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.94793; -tgtGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1341 1371 974 539 328 416 166 399 165 1676 178 322 147 309 150 367 239 843 539 841 730 1106 1239 c 0 1995 1266 1536 441 537 207 372 170 388 323 340 119 246 118 299 133 419 399 847 556 1055 668 1733 g 0 1380 8048 1343 10512 246 11039 129 11169 107 9462 96 11287 78 11259 104 11115 279 8689 766 9491 890 8743 1545 t 0 7165 1196 8028 389 10770 219 11214 143 11221 420 11267 153 11410 195 11328 266 10944 1950 9729 993 9206 1364 7364

positions_6nt_m10_rc_shift0 (positions_6nt_m10_rc)
; positions_6nt_m4 versus positions_6nt_m10_rc; m=6/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.947266; gtGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 1468 1221 1246 930 1127 343 383 185 371 139 416 330 329 162 279 156 326 191 1835 426 741 592 1346 1121 c 1480 2000 1142 1444 1280 536 220 513 135 387 138 2051 159 316 109 413 135 387 411 769 423 891 806 1606 g 7303 1307 8314 953 8556 287 10912 124 11035 64 11004 173 11051 68 11129 86 11008 183 8621 510 9791 784 8063 1500 t 1442 7165 991 8366 730 10527 178 10871 152 11103 135 9139 154 11147 176 11038 224 10932 826 9988 738 9426 1478 7466

positions_7nt_m6_rc_shift1 (positions_7nt_m6_rc)
; positions_6nt_m4 versus positions_7nt_m6_rc; m=7/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.946901; -tGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1504 1590 684 642 371 606 268 567 468 569 278 432 231 424 258 528 399 1088 782 1160 1033 1483 1633 c 0 2360 1342 1092 414 974 260 731 241 2462 263 563 181 628 188 559 253 743 530 1163 768 1500 975 2227 g 0 1533 10480 562 13243 217 13515 138 13581 248 13557 115 13783 94 13684 179 13318 452 10605 1051 11358 1312 10403 1996 t 0 9253 1238 12312 351 13088 269 13513 261 11472 261 13694 254 13697 354 13654 551 13056 2427 11654 1364 10805 1789 8794

positions_7nt_m10_rc_shift0 (positions_7nt_m10_rc)
; positions_6nt_m4 versus positions_7nt_m10_rc; m=8/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.946686; gtGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 1340 1101 1137 525 475 259 434 157 403 186 742 165 281 157 310 190 347 418 426 360 494 489 1192 1015 c 1328 1683 1253 667 330 484 199 417 176 417 331 268 129 361 117 327 150 1960 256 588 272 826 684 1501 g 6806 1177 7432 432 9615 201 9842 105 9932 135 8714 125 10130 69 10084 83 9935 300 9630 288 9383 487 7487 1303 t 1199 6712 851 9049 253 9729 198 9994 162 9935 886 10115 133 10086 162 10073 241 7995 361 9437 524 8871 1310 6854

positions_6nt_m8_rc_shift1 (positions_6nt_m8_rc)
; positions_6nt_m4 versus positions_6nt_m8_rc; m=9/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.946198; -tGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1160 1239 510 493 307 475 212 495 354 427 172 302 156 329 193 1372 241 430 296 509 436 1201 1053 c 0 1801 1073 784 346 754 203 565 193 1914 194 382 129 432 140 365 347 451 218 532 257 774 836 1579 g 0 1158 7963 440 10108 186 10324 113 10341 187 10408 74 10602 69 10552 157 8887 197 10173 286 9927 550 7812 1420 t 0 7092 936 9477 264 9964 209 10321 182 8756 182 10583 178 10554 190 10496 605 10322 390 10097 518 9451 1362 7159

positions_6nt_m1_rc_shift1 (positions_6nt_m1_rc)
; positions_6nt_m4 versus positions_6nt_m1_rc; m=10/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.94609; -tgtGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1111 1256 1027 1006 336 335 138 322 130 1646 160 286 107 228 68 251 154 683 379 627 540 904 973 c 0 1827 1211 1449 814 422 201 272 128 270 304 255 102 181 87 181 80 260 322 633 409 747 542 1442 g 0 1360 6633 1249 7183 313 9532 107 9678 117 7946 85 9760 60 9816 64 9728 189 7492 566 8487 663 7674 1249 t 0 5953 1151 6526 1248 9180 183 9734 123 9734 355 9751 103 9903 120 9938 192 9648 1754 8673 728 8301 1131 6587

positions_7nt_m1_rc_shift1 (positions_7nt_m1_rc)
; positions_6nt_m4 versus positions_7nt_m1_rc; m=11/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.945887; -tGTGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 0 892 977 464 570 236 1546 178 304 117 245 87 227 100 223 278 223 147 243 180 340 291 775 771 c 0 1393 933 787 390 443 356 357 121 220 78 246 55 228 80 1413 110 307 105 475 165 497 380 1135 g 0 954 6223 474 7636 242 6672 147 8367 63 8506 41 8541 42 8486 145 8387 77 8297 155 8011 420 5720 1210 t 0 5670 776 7184 313 7988 335 8227 117 8509 80 8535 86 8539 120 7073 189 8378 264 8099 393 7701 2034 5793

positions_7nt_m5_rc_shift0 (positions_7nt_m5_rc)
; positions_6nt_m4 versus positions_7nt_m5_rc; m=12/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.945349; gtGTGTGTGTGTGTGTGTGTgTgt ; cor=; Ncor= a 1011 789 599 307 1563 172 300 127 269 81 238 256 241 119 201 136 239 136 288 218 738 522 995 847 c 986 1294 508 531 396 369 119 314 94 241 85 1413 98 242 83 316 98 320 158 409 325 712 695 1138 g 6003 774 7395 299 6562 154 8377 70 8441 39 8486 116 8442 55 8461 51 8348 133 8101 323 5963 855 5955 1267 t 896 6039 394 7759 375 8201 100 8385 92 8535 87 7111 115 8480 151 8393 211 8307 349 7946 1870 6807 1251 5644

positions_7nt_m2_rc_shift0 (positions_7nt_m2_rc)
; positions_6nt_m4 versus positions_7nt_m2_rc; m=13/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.945272; GTGTGTGTGTGTGTGTGTGTgTGt ; cor=; Ncor= a 899 703 349 190 305 147 1345 111 229 100 225 89 208 236 239 132 238 156 292 214 1599 464 973 803 c 793 1117 245 392 126 368 236 235 97 281 63 209 63 1247 108 237 90 333 131 419 328 639 548 1041 g 5681 572 7206 134 7486 123 6214 74 7661 59 7704 42 7707 132 7574 81 7560 116 7405 252 5476 632 5510 1101 t 696 5677 269 7353 152 7431 274 7649 82 7629 77 7729 91 6454 148 7619 181 7464 241 7184 666 6334 1038 5124

positions_7nt_m4_rc_shift0 (positions_7nt_m4_rc)
; positions_6nt_m4 versus positions_7nt_m4_rc; m=14/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.945114; gtgTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 1282 1138 1133 484 448 286 450 198 459 334 405 158 274 144 303 173 1329 202 384 256 448 370 1126 919 c 1302 1605 965 665 322 669 188 500 185 1863 186 333 121 377 120 292 320 362 183 426 212 602 613 1337 g 6419 1148 6894 448 9195 179 9390 117 9408 184 9478 70 9669 64 9637 136 8039 174 9346 238 9154 432 7287 1193 t 1215 6327 1226 8621 253 9084 190 9403 166 7837 149 9657 154 9633 158 9617 530 9480 305 9298 404 8814 1192 6769

positions_7nt_m3_rc_shift1 (positions_7nt_m3_rc)
; positions_6nt_m4 versus positions_7nt_m3_rc; m=15/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.944941; -tgtGTGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 1213 1267 1364 527 362 429 209 395 214 1431 168 300 148 297 147 315 388 382 316 408 384 555 869 c 0 1773 1184 1323 447 572 191 424 179 460 323 291 112 315 71 274 94 1714 179 456 175 663 245 1399 g 0 1215 6578 783 8727 267 9198 142 9300 135 7899 104 9514 68 9569 57 9454 230 9198 200 9117 302 8739 940 t 0 5839 1011 6570 339 8839 222 9265 166 9231 387 9477 114 9509 103 9562 177 7708 281 9068 340 8691 501 6832

positions_6nt_m9_rc_shift1 (positions_6nt_m9_rc)
; positions_6nt_m4 versus positions_6nt_m9_rc; m=16/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score= 0.9442; -tgTGTGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 1029 1214 831 1037 413 406 182 352 131 382 137 685 123 250 122 286 162 1404 222 386 281 480 739 c 0 1728 1164 1238 1235 525 272 354 167 318 155 308 275 213 118 186 119 267 281 344 188 463 248 1302 g 0 1189 6407 859 6900 314 8948 146 9128 71 9123 103 8031 103 9295 89 9220 128 7589 221 8922 289 8605 914 t 0 5864 1025 6882 638 8558 184 9128 163 9290 150 9262 819 9371 147 9413 185 9253 536 9023 314 8777 477 6855

positions_7nt_m8_rc_shift0 (positions_7nt_m8_rc)
; positions_6nt_m4 versus positions_7nt_m8_rc; m=17/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.943945; gtGTGTGTGTGTGTGTGTGTGtgt ; cor=; Ncor= a 1309 1016 546 385 471 280 509 393 445 194 325 148 296 171 1345 221 372 297 436 383 608 1188 1430 1251 c 1196 1646 454 873 216 671 203 2065 208 416 123 420 121 309 306 382 158 421 159 581 294 1424 793 1522 g 7237 883 9432 253 9861 173 9898 222 9967 77 10189 64 10254 128 8652 155 9994 221 9874 353 9347 998 7139 1532 t 1063 7260 373 9294 257 9681 195 8125 185 10118 168 10173 134 10197 502 10047 281 9866 336 9488 556 7195 1443 6500

positions_6nt_m3_rc_shift0 (positions_6nt_m3_rc)
; positions_6nt_m4 versus positions_6nt_m3_rc; m=18/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.942372; gtGTGTGTGTGTGTGTGTGTGygt ; cor=; Ncor= a 763 643 617 213 204 96 196 80 1028 73 143 59 134 66 389 98 170 98 190 138 268 389 830 678 c 772 882 746 252 138 182 96 181 197 148 78 121 42 120 158 136 80 220 74 275 116 1795 478 907 g 4311 642 4713 184 6030 84 6106 60 5061 49 6196 25 6244 58 5226 94 6106 77 6062 145 5903 428 4387 818 t 637 4316 407 5834 111 6121 85 6162 197 6213 66 6278 63 6239 710 6155 127 6088 157 5925 196 3871 788 4080

positions_6nt_m7_rc_shift1 (positions_6nt_m7_rc)
; positions_6nt_m4 versus positions_6nt_m7_rc; m=19/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.937824; -TGTGTGTGTGTGTGTGTGTktgt ; cor=; Ncor= a 0 446 534 115 153 85 165 153 132 59 96 38 114 47 899 65 110 76 188 127 430 408 614 665 c 0 726 357 232 59 174 50 1094 63 122 36 138 36 99 127 136 73 160 67 262 239 549 487 733 g 0 485 4753 109 5709 54 5722 73 5736 31 5806 25 5793 62 4694 79 5668 114 5526 245 3731 1268 3578 996 t 0 4340 353 5541 76 5684 60 4677 66 5785 59 5796 54 5789 277 5717 146 5647 216 5363 1597 3772 1318 3603

positions_6nt_m6_rc_shift0 (positions_6nt_m6_rc)
; positions_6nt_m4 versus positions_6nt_m6_rc; m=20/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.937625; gtGTGTGTGTGTGTGTGTgtGtgt ; cor=; Ncor= a 1244 1142 820 1256 194 189 204 139 193 331 227 127 141 140 223 178 300 631 932 869 895 1035 1390 1328 c 1023 1499 660 1051 129 337 54 217 60 1952 105 195 49 300 61 256 151 1076 540 1014 718 1117 953 1480 g 6677 1066 7825 511 9519 85 9636 49 9623 131 9499 64 9641 71 9522 169 9166 1286 6536 1877 7182 1310 5987 1768 t 1014 6251 653 7140 116 9347 64 9553 82 7544 127 9572 127 9447 152 9355 341 6965 1950 6198 1163 6496 1628 5382

positions_6nt_m5_rc_shift0 (positions_6nt_m5_rc)
; positions_6nt_m4 versus positions_6nt_m5_rc; m=21/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.936184; GTGTGTGTGTGTGTGTGTGTktgt ; cor=; Ncor= a 782 585 250 169 221 115 249 218 207 79 148 62 142 76 1024 106 190 140 268 214 635 618 945 847 c 669 905 162 347 81 278 61 1330 93 172 47 195 55 168 190 189 94 262 109 379 319 799 695 925 g 5039 524 6581 111 6732 58 6728 103 6720 39 6841 34 6839 95 5545 113 6628 163 6462 345 4316 1330 4265 1196 t 629 5105 126 6492 85 6668 81 5468 99 6829 83 6828 83 6780 360 6711 207 6554 280 6181 1849 4372 1214 4151

positions_6nt_m2_rc_shift0 (positions_6nt_m2_rc)
; positions_6nt_m4 versus positions_6nt_m2_rc; m=22/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.877849; gtGtGTGTGTGyGTGTGtkkkkkk ; cor=; Ncor= a 690 657 490 890 143 110 100 65 114 72 125 230 106 117 146 140 223 461 704 653 788 810 1002 1057 c 586 904 386 609 91 132 34 173 33 113 57 1466 67 151 56 280 133 830 428 682 659 682 884 937 g 3623 638 4284 347 5169 63 5331 32 5314 30 5239 121 5231 74 5173 124 4839 1221 2553 1977 2024 2209 2207 1544 t 615 3315 354 3668 111 5209 49 5244 53 5299 93 3697 110 5172 139 4970 319 3002 1829 2202 2043 1813 1421 1976

dyads_m2_rc_shift3 (dyads_m2_rc)
; positions_6nt_m4 versus dyads_m2_rc; m=23/33; ncol2=20; w=0; offset=2; strand=R; shift=3; score=0.857624; ---tgtGTGTGTGTGTGTGTktg- ; cor=; Ncor= a 0 0 0 816 822 1308 144 117 69 74 92 54 121 200 100 73 58 58 114 113 414 477 688 0 c 0 0 0 1111 639 729 100 141 32 170 29 110 40 1298 50 104 40 204 44 203 227 801 544 0 g 0 0 0 760 3514 357 5174 78 5404 26 5384 14 5322 80 5333 28 5358 40 5234 170 3227 891 3349 0 t 0 0 0 2859 571 3152 128 5210 41 5276 41 5368 63 3968 63 5341 90 5244 154 5060 1678 3377 965 0

dyads_m10_rc_shift2 (dyads_m10_rc)
; positions_6nt_m4 versus dyads_m10_rc; m=24/33; ncol2=18; w=0; offset=1; strand=R; shift=2; score=0.772107; --GTGyGTGTGTGTGTGTGT---- ; cor=; Ncor= a 0 0 1123 902 380 480 221 201 229 125 245 110 261 88 252 141 2074 220 1055 739 0 0 0 0 c 0 0 877 1578 284 2725 180 355 87 269 69 179 64 171 86 208 286 342 600 1101 0 0 0 0 g 0 0 7303 744 9327 320 9671 113 9764 42 9807 58 9760 75 9753 129 7314 282 7513 1135 0 0 0 0 t 0 0 910 6989 222 6688 141 9544 133 9777 92 9866 128 9879 122 9735 539 9369 1045 7238 0 0 0 0

oligos_7nt_mkv5_m8_rc_shift4 (oligos_7nt_mkv5_m8_rc)
; positions_6nt_m4 versus oligos_7nt_mkv5_m8_rc; m=25/33; ncol2=16; w=0; offset=3; strand=R; shift=4; score=0.68675; ----GTGTGTGTGTGTGTGT---- ; cor=; Ncor= a 0 0 0 0 1224 929 839 201 176 67 180 73 1978 55 133 73 155 65 855 646 0 0 0 0 c 0 0 0 0 1137 1414 1684 216 131 141 98 144 261 127 82 126 68 157 434 1252 0 0 0 0 g 0 0 0 0 7805 1031 8182 199 10841 68 10901 61 8641 55 10953 81 10941 72 9006 930 0 0 0 0 t 0 0 0 0 1079 7871 540 10629 97 10969 66 10967 365 11008 77 10965 81 10951 950 8417 0 0 0 0

oligos_6nt_mkv4_m5_shift6 (oligos_6nt_mkv4_m5)
; positions_6nt_m4 versus oligos_6nt_mkv4_m5; m=26/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.628716; ------gtsTGTGyGTGTsTgt-- ; cor=; Ncor= a 0 0 0 0 0 0 214 180 62 30 40 21 22 21 20 16 41 12 98 13 202 129 0 0 c 0 0 0 0 0 0 294 260 792 62 50 39 43 1077 48 32 62 38 611 57 217 297 0 0 g 0 0 0 0 0 0 895 280 760 38 1580 14 1604 24 1593 23 1556 28 898 67 1041 211 0 0 t 0 0 0 0 0 0 294 977 83 1567 27 1623 28 575 36 1626 38 1619 90 1560 237 1060 0 0

oligos_6nt_mkv4_m2_rc_shift3 (oligos_6nt_mkv4_m2_rc)
; positions_6nt_m4 versus oligos_6nt_mkv4_m2_rc; m=27/33; ncol2=16; w=0; offset=2; strand=R; shift=3; score=0.620183; ---tgkGTGTrTGTGwGtg----- ; cor=; Ncor= a 0 0 0 421 362 158 100 83 79 61 1618 50 69 71 78 840 208 394 410 0 0 0 0 0 c 0 0 0 432 382 215 95 70 38 26 41 50 23 68 33 231 117 379 219 0 0 0 0 0 g 0 0 0 465 1338 1092 2225 94 2331 75 757 70 2376 82 2340 137 1970 351 1513 0 0 0 0 0 t 0 0 0 1178 414 1031 76 2249 48 2334 80 2326 28 2275 45 1288 201 1372 354 0 0 0 0 0

oligos_7nt_mkv5_m4_rc_shift4 (oligos_7nt_mkv5_m4_rc)
; positions_6nt_m4 versus oligos_7nt_mkv5_m4_rc; m=28/33; ncol2=13; w=0; offset=3; strand=R; shift=4; score= 0.5443; ----gtGTGTgTGTGtg------- ; cor=; Ncor= a 0 0 0 0 1279 913 50 29 50 48 740 84 53 42 83 726 1242 0 0 0 0 0 0 0 c 0 0 0 0 1022 1381 57 101 17 96 257 67 42 67 47 1558 663 0 0 0 0 0 0 0 g 0 0 0 0 5541 804 8808 48 8906 99 5812 265 8848 44 8776 794 5506 0 0 0 0 0 0 0 t 0 0 0 0 1185 5929 112 8849 54 8784 2218 8611 84 8874 121 5949 1616 0 0 0 0 0 0 0

dyads_m3_rc_shift2 (dyads_m3_rc)
; positions_6nt_m4 versus dyads_m3_rc; m=29/33; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.537673; --gtGyGTGTGTrTgt-------- ; cor=; Ncor= a 0 0 413 415 154 163 75 76 92 38 88 38 1851 76 439 310 0 0 0 0 0 0 0 0 c 0 0 343 632 135 1901 79 91 46 79 48 56 73 87 308 397 0 0 0 0 0 0 0 0 g 0 0 1815 346 2562 122 2755 58 2769 26 2764 50 931 99 1831 450 0 0 0 0 0 0 0 0 t 0 0 395 1573 115 780 57 2741 59 2823 66 2822 111 2704 388 1809 0 0 0 0 0 0 0 0

dyads_m7_rc_shift2 (dyads_m7_rc)
; positions_6nt_m4 versus dyads_m7_rc; m=30/33; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.529623; --gtrTGTGTGTrTgt-------- ; cor=; Ncor= a 0 0 421 401 1801 97 120 67 150 45 131 47 1848 71 463 319 0 0 0 0 0 0 0 0 c 0 0 391 440 168 78 71 66 35 59 58 65 76 105 287 374 0 0 0 0 0 0 0 0 g 0 0 1694 455 786 89 2647 75 2656 31 2638 58 863 115 1780 455 0 0 0 0 0 0 0 0 t 0 0 405 1615 156 2647 73 2703 70 2776 84 2741 124 2620 381 1763 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m5_rc_shift5 (oligos_7nt_mkv5_m5_rc)
; positions_6nt_m4 versus oligos_7nt_mkv5_m5_rc; m=31/33; ncol2=14; w=0; offset=4; strand=R; shift=5; score=0.525253; -----tgkGTGTGCGTGtg----- ; cor=; Ncor= a 0 0 0 0 0 501 418 166 38 69 62 55 56 82 45 114 206 388 389 0 0 0 0 0 c 0 0 0 0 0 545 526 155 67 60 21 64 40 2153 48 87 123 595 280 0 0 0 0 0 g 0 0 0 0 0 628 1283 1562 2700 70 2733 45 2718 96 2713 95 2317 359 1722 0 0 0 0 0 t 0 0 0 0 0 1177 624 968 46 2652 35 2687 37 520 45 2555 205 1509 460 0 0 0 0 0

dyads_m9_rc_shift1 (dyads_m9_rc)
; positions_6nt_m4 versus dyads_m9_rc; m=32/33; ncol2=13; w=0; offset=0; strand=R; shift=1; score=0.476706; -tgkGTGTGTATgt---------- ; cor=; Ncor= a 0 391 371 143 66 61 77 50 91 26 1755 47 384 266 0 0 0 0 0 0 0 0 0 0 c 0 440 430 149 65 26 34 36 51 26 45 52 252 318 0 0 0 0 0 0 0 0 0 0 g 0 522 1114 1376 2267 85 2298 72 2255 46 532 85 1452 426 0 0 0 0 0 0 0 0 0 0 t 0 1082 520 767 37 2263 26 2277 38 2337 103 2251 347 1425 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m9_rc_shift2 (oligos_7nt_mkv5_m9_rc)
; positions_6nt_m4 versus oligos_7nt_mkv5_m9_rc; m=33/33; ncol2=13; w=0; offset=1; strand=R; shift=2; score=0.442567; --ktTTGTGTsTGtg--------- ; cor=; Ncor= a 0 0 270 323 42 35 26 13 49 15 96 71 140 218 284 0 0 0 0 0 0 0 0 0 c 0 0 324 334 71 49 57 39 68 34 1213 111 183 389 315 0 0 0 0 0 0 0 0 0 g 0 0 796 432 298 36 1761 23 1715 44 472 176 1425 301 845 0 0 0 0 0 0 0 0 0 t 0 0 494 795 1473 1764 40 1809 52 1791 103 1526 136 976 440 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: dyads_m4_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m4_shift0 (dyads_m4)
; dyads_m4; m=0 (reference); ncol1=17; shift=0; ncol=17; GaGAGAGAGAGAGAGaG ; Alignment reference a 1146 5072 674 6098 581 6400 516 6520 527 6554 534 6417 568 6169 757 5112 1251 c 601 904 326 610 226 569 166 521 148 520 134 571 200 633 274 1020 526 g 5388 771 6362 387 6628 275 6791 285 6812 285 6823 311 6662 380 6323 751 5329 t 505 893 278 545 205 396 167 314 153 281 149 341 210 458 286 757 534

dyads_m4_shift0 (dyads_m4)
; dyads_m4 versus dyads_m4; m=1/2; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; GaGAGAGAGAGAGAGaG ; cor=; Ncor= a 1146 5072 674 6098 581 6400 516 6520 527 6554 534 6417 568 6169 757 5112 1251 c 601 904 326 610 226 569 166 521 148 520 134 571 200 633 274 1020 526 g 5388 771 6362 387 6628 275 6791 285 6812 285 6823 311 6662 380 6323 751 5329 t 505 893 278 545 205 396 167 314 153 281 149 341 210 458 286 757 534

oligos_7nt_mkv5_m7_rc_shift3 (oligos_7nt_mkv5_m7_rc)
; dyads_m4 versus oligos_7nt_mkv5_m7_rc; m=2/2; ncol2=14; w=0; offset=3; strand=R; shift=3; score=0.80743; ---aGAGAGArAGAGag ; cor=; Ncor= a 0 0 0 4174 1102 5431 368 5778 381 5780 2077 5753 383 5699 403 4307 1206 c 0 0 0 719 524 332 147 286 76 293 156 244 136 252 143 820 471 g 0 0 0 960 4387 444 5779 243 5870 266 4049 301 5809 282 5741 736 4268 t 0 0 0 595 435 241 154 141 121 109 166 150 120 215 161 585 503

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m1; m=0 (reference); ncol1=24; shift=1; ncol=25; -cacACACACACACACACACACACa ; Alignment reference a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m1 versus positions_7nt_m1; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

dyads_m8_shift1 (dyads_m8)
; positions_7nt_m1 versus dyads_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993368; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_7nt_m1 versus positions_6nt_m8; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991844; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

dyads_m1_shift1 (dyads_m1)
; positions_7nt_m1 versus dyads_m1; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988568; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_7nt_m1 versus positions_7nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988315; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_7nt_m1 versus positions_7nt_m6; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988134; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_7nt_m1 versus positions_6nt_m9; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.987053; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_7nt_m1 versus positions_7nt_m3; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986925; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_7nt_m1 versus positions_6nt_m1; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985834; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_7nt_m1 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980244; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_7nt_m1 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.945887; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_7nt_m1 versus positions_7nt_m5; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914778; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_7nt_m1 versus positions_7nt_m2; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913133; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_7nt_m1 versus positions_7nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912131; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_7nt_m4_shift2 (positions_7nt_m4)
; positions_7nt_m1 versus positions_7nt_m4; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911769; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_7nt_m1 versus positions_6nt_m5; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910949; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_7nt_m1 versus positions_6nt_m10; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909802; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_7nt_m7_shift2 (positions_7nt_m7)
; positions_7nt_m1 versus positions_7nt_m7; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908749; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102

positions_7nt_m8_shift2 (positions_7nt_m8)
; positions_7nt_m1 versus positions_7nt_m8; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908615; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 c 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 g 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 t 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016

positions_6nt_m3_shift2 (positions_6nt_m3)
; positions_7nt_m1 versus positions_6nt_m3; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.907037; --acrCACACACACACACACACACa ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_7nt_m1 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.899584; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_7nt_m1 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.859373; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift1 (dyads_m2)
; positions_7nt_m1 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=0; strand=D; shift=1; score=0.816251; -camACACACACACACACaca---- ; cor=; Ncor= a 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 0 c 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 0 g 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 0 t 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0 0

dyads_m10_shift2 (dyads_m10)
; positions_7nt_m1 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=1; strand=D; shift=2; score=0.73515; --ACACACACACACACrCAC----- ; cor=; Ncor= a 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 0 c 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 0 g 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 0 t 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0 0

oligos_7nt_mkv5_m8_shift6 (oligos_7nt_mkv5_m8)
; positions_7nt_m1 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.656518; ------ACACACACACACACAC--- ; cor=; Ncor= a 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 c 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 g 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 t 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0

oligos_6nt_mkv4_m5_rc_shift2 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m1 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=1; strand=R; shift=2; score=0.604415; --acAsACACrCACAsac------- ; cor=; Ncor= a 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 0 0 0 c 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 0 0 0 g 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 0 0 0 t 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0 0 0 0

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; positions_7nt_m1 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.592341; ---------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; positions_7nt_m1 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.521002; ---caCACAcACACac--------- ; cor=; Ncor= a 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 c 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 g 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 t 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0

dyads_m7_shift8 (dyads_m7)
; positions_7nt_m1 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.515957; --------acAyACACACAyac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 c 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 g 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 t 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0

dyads_m3_shift10 (dyads_m3)
; positions_7nt_m1 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.506059; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0

oligos_7nt_mkv5_m5_shift5 (oligos_7nt_mkv5_m5)
; positions_7nt_m1 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=4; strand=D; shift=5; score=0.496011; -----caCACGCACACmca------ ; cor=; Ncor= a 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 0 0 0 c 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 0 0 0 g 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 0 0 0 t 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0 0 0 0

dyads_m9_shift12 (dyads_m9)
; positions_7nt_m1 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.45174; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift9 (oligos_7nt_mkv5_m9)
; positions_7nt_m1 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=8; strand=D; shift=9; score=0.425983; ---------caCAsACACAAam--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 c 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 g 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 t 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m7_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m7_shift0 (oligos_7nt_mkv5_m7)
; oligos_7nt_mkv5_m7; m=0 (reference); ncol1=14; shift=0; ncol=14; ctCTCTyTCTCTCt ; Alignment reference a 503 585 161 215 120 150 166 109 121 141 154 241 435 595 c 4268 736 5741 282 5809 301 4049 266 5870 243 5779 444 4387 960 g 471 820 143 252 136 244 156 293 76 286 147 332 524 719 t 1206 4307 403 5699 383 5753 2077 5780 381 5778 368 5431 1102 4174

oligos_7nt_mkv5_m7_shift0 (oligos_7nt_mkv5_m7)
; oligos_7nt_mkv5_m7 versus oligos_7nt_mkv5_m7; m=1/3; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; ctCTCTyTCTCTCt ; cor=; Ncor= a 503 585 161 215 120 150 166 109 121 141 154 241 435 595 c 4268 736 5741 282 5809 301 4049 266 5870 243 5779 444 4387 960 g 471 820 143 252 136 244 156 293 76 286 147 332 524 719 t 1206 4307 403 5699 383 5753 2077 5780 381 5778 368 5431 1102 4174

dyads_m4_rc_shift0 (dyads_m4_rc)
; oligos_7nt_mkv5_m7 versus dyads_m4_rc; m=2/3; ncol2=17; w=0; offset=0; strand=R; shift=0; score=0.80743; CtCTCTCTCTCTCT ; cor=; Ncor= a 534 757 286 458 210 341 149 281 153 314 167 396 205 545 c 5329 751 6323 380 6662 311 6823 285 6812 285 6791 275 6628 387 g 526 1020 274 633 200 571 134 520 148 521 166 569 226 610 t 1251 5112 757 6169 568 6417 534 6554 527 6520 516 6400 581 6098

oligos_7nt_mkv5_m10_rc_shift4 (oligos_7nt_mkv5_m10_rc)
; oligos_7nt_mkv5_m7 versus oligos_7nt_mkv5_m10_rc; m=3/3; ncol2=11; w=0; offset=4; strand=R; shift=4; score=0.470951; ----cyGTCTCTGy ; cor=; Ncor= a 0 0 0 0 272 236 65 39 79 25 69 20 55 227 c 0 0 0 0 665 487 267 85 1613 59 1666 55 207 496 g 0 0 0 0 434 348 1348 80 37 93 33 60 1422 367 t 0 0 0 0 432 732 123 1599 74 1626 35 1668 119 713

One-to-n matrix alignment; reference matrix: positions_6nt_m3_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m3; m=0 (reference); ncol1=24; shift=1; ncol=25; -acrCACACACACACACACACACac ; Alignment reference a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m3 versus positions_6nt_m3; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_6nt_m3 versus positions_7nt_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9925; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_6nt_m3 versus positions_7nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98916; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_6nt_m3 versus positions_7nt_m7; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989078; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_6nt_m3 versus positions_7nt_m4; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98741; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_6nt_m3 versus positions_7nt_m5; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98513; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_6nt_m3 versus positions_7nt_m2; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98506; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_6nt_m3 versus positions_6nt_m5; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984404; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_6nt_m3 versus positions_6nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984008; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_6nt_m3 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.974865; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_6nt_m3 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.942372; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_6nt_m3 versus positions_7nt_m3; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914166; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_6nt_m3 versus positions_6nt_m9; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913377; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_6nt_m3 versus positions_6nt_m1; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912376; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m3 versus positions_6nt_m2; m=15/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.911068; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

dyads_m1_shift2 (dyads_m1)
; positions_6nt_m3 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.91034; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_7nt_m9_shift2 (positions_7nt_m9)
; positions_6nt_m3 versus positions_7nt_m9; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910025; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

dyads_m8_shift2 (dyads_m8)
; positions_6nt_m3 versus dyads_m8; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909791; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_6nt_m8_shift0 (positions_6nt_m8)
; positions_6nt_m3 versus positions_6nt_m8; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909589; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_6nt_m3 versus positions_7nt_m6; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909138; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_6nt_m3 versus positions_7nt_m1; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.907037; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_6nt_m3 versus positions_6nt_m7; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.906781; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

dyads_m2_shift4 (dyads_m2)
; positions_6nt_m3 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=4; score=0.801821; ----camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0

dyads_m10_shift7 (dyads_m10)
; positions_6nt_m3 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=7; score=0.735604; -------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)
; positions_6nt_m3 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.664025; ---------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; positions_6nt_m3 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.604861; --------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m3 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.604324; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)
; positions_6nt_m3 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.529128; ----------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0

dyads_m7_shift11 (dyads_m7)
; positions_6nt_m3 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.514408; -----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m3_shift7 (dyads_m3)
; positions_6nt_m3 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.507186; -------acAyACACACrCac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 c 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 g 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 t 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; positions_6nt_m3 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.489578; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m9_shift11 (dyads_m9)
; positions_6nt_m3 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.45217; -----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

oligos_7nt_mkv5_m9_shift12 (oligos_7nt_mkv5_m9)
; positions_6nt_m3 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.437995; ------------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m9_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m9_shift0 (oligos_6nt_mkv4_m9)
; oligos_6nt_mkv4_m9; m=0 (reference); ncol1=11; shift=0; ncol=11; mycCCACAGcv ; Alignment reference a 351 293 194 0 22 1229 47 1193 25 335 370 c 446 514 929 1366 1252 59 1259 95 36 476 370 g 285 244 167 14 74 64 49 67 1298 267 380 t 320 351 112 22 54 50 47 47 43 324 282

oligos_6nt_mkv4_m9_shift0 (oligos_6nt_mkv4_m9)
; oligos_6nt_mkv4_m9 versus oligos_6nt_mkv4_m9; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; mycCCACAGcv ; cor=; Ncor= a 351 293 194 0 22 1229 47 1193 25 335 370 c 446 514 929 1366 1252 59 1259 95 36 476 370 g 285 244 167 14 74 64 49 67 1298 267 380 t 320 351 112 22 54 50 47 47 43 324 282

oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m9 versus oligos_6nt_mkv4_m1; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.771457; cycCCACAAmm ; cor=; Ncor= a 354 335 306 0 2 1250 50 1267 1364 427 379 c 516 530 804 1437 1382 94 1304 72 17 444 541 g 254 207 179 0 16 42 44 36 33 264 277 t 320 372 155 7 44 58 46 69 30 309 247

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m5_shift7 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m5_shift7 (oligos_6nt_mkv4_m5)
; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=16; shift=7; ncol=23; -------gtsTGTGyGTGTsTgt ; Alignment reference a 0 0 0 0 0 0 0 214 180 62 30 40 21 22 21 20 16 41 12 98 13 202 129 c 0 0 0 0 0 0 0 294 260 792 62 50 39 43 1077 48 32 62 38 611 57 217 297 g 0 0 0 0 0 0 0 895 280 760 38 1580 14 1604 24 1593 23 1556 28 898 67 1041 211 t 0 0 0 0 0 0 0 294 977 83 1567 27 1623 28 575 36 1626 38 1619 90 1560 237 1060

oligos_6nt_mkv4_m5_shift7 (oligos_6nt_mkv4_m5)
; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m5; m=1/33; ncol2=16; w=0; offset=0; strand=D; shift=7; score= 1; -------gtsTGTGyGTGTsTgt ; cor=; Ncor= a 0 0 0 0 0 0 0 214 180 62 30 40 21 22 21 20 16 41 12 98 13 202 129 c 0 0 0 0 0 0 0 294 260 792 62 50 39 43 1077 48 32 62 38 611 57 217 297 g 0 0 0 0 0 0 0 895 280 760 38 1580 14 1604 24 1593 23 1556 28 898 67 1041 211 t 0 0 0 0 0 0 0 294 977 83 1567 27 1623 28 575 36 1626 38 1619 90 1560 237 1060

oligos_7nt_mkv5_m8_rc_shift7 (oligos_7nt_mkv5_m8_rc)
; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m8_rc; m=2/33; ncol2=16; w=0; offset=0; strand=R; shift=7; score=0.912141; -------GTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1224 929 839 201 176 67 180 73 1978 55 133 73 155 65 855 646 c 0 0 0 0 0 0 0 1137 1414 1684 216 131 141 98 144 261 127 82 126 68 157 434 1252 g 0 0 0 0 0 0 0 7805 1031 8182 199 10841 68 10901 61 8641 55 10953 81 10941 72 9006 930 t 0 0 0 0 0 0 0 1079 7871 540 10629 97 10969 66 10967 365 11008 77 10965 81 10951 950 8417

dyads_m10_rc_shift5 (dyads_m10_rc)
; oligos_6nt_mkv4_m5 versus dyads_m10_rc; m=3/33; ncol2=18; w=-2; offset=-2; strand=R; shift=5; score=0.802024; -----GTGyGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 1123 902 380 480 221 201 229 125 245 110 261 88 252 141 2074 220 1055 739 c 0 0 0 0 0 877 1578 284 2725 180 355 87 269 69 179 64 171 86 208 286 342 600 1101 g 0 0 0 0 0 7303 744 9327 320 9671 113 9764 42 9807 58 9760 75 9753 129 7314 282 7513 1135 t 0 0 0 0 0 910 6989 222 6688 141 9544 133 9777 92 9866 128 9879 122 9735 539 9369 1045 7238

dyads_m2_rc_shift4 (dyads_m2_rc)
; oligos_6nt_mkv4_m5 versus dyads_m2_rc; m=4/33; ncol2=20; w=-3; offset=-3; strand=R; shift=4; score=0.731421; ----tgtGTGTGTGTGTGTGTkt ; cor=; Ncor= a 0 0 0 0 816 822 1308 144 117 69 74 92 54 121 200 100 73 58 58 114 113 414 477 c 0 0 0 0 1111 639 729 100 141 32 170 29 110 40 1298 50 104 40 204 44 203 227 801 g 0 0 0 0 760 3514 357 5174 78 5404 26 5384 14 5322 80 5333 28 5358 40 5234 170 3227 891 t 0 0 0 0 2859 571 3152 128 5210 41 5276 41 5368 63 3968 63 5341 90 5244 154 5060 1678 3377

dyads_m7_rc_shift7 (dyads_m7_rc)
; oligos_6nt_mkv4_m5 versus dyads_m7_rc; m=5/33; ncol2=14; w=0; offset=0; strand=R; shift=7; score=0.714257; -------gtrTGTGTGTrTgt-- ; cor=; Ncor= a 0 0 0 0 0 0 0 421 401 1801 97 120 67 150 45 131 47 1848 71 463 319 0 0 c 0 0 0 0 0 0 0 391 440 168 78 71 66 35 59 58 65 76 105 287 374 0 0 g 0 0 0 0 0 0 0 1694 455 786 89 2647 75 2656 31 2638 58 863 115 1780 455 0 0 t 0 0 0 0 0 0 0 405 1615 156 2647 73 2703 70 2776 84 2741 124 2620 381 1763 0 0

oligos_7nt_mkv5_m4_rc_shift9 (oligos_7nt_mkv5_m4_rc)
; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m4_rc; m=6/33; ncol2=13; w=0; offset=2; strand=R; shift=9; score=0.711097; ---------gtGTGTgTGTGtg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1279 913 50 29 50 48 740 84 53 42 83 726 1242 0 c 0 0 0 0 0 0 0 0 0 1022 1381 57 101 17 96 257 67 42 67 47 1558 663 0 g 0 0 0 0 0 0 0 0 0 5541 804 8808 48 8906 99 5812 265 8848 44 8776 794 5506 0 t 0 0 0 0 0 0 0 0 0 1185 5929 112 8849 54 8784 2218 8611 84 8874 121 5949 1616 0

dyads_m3_rc_shift9 (dyads_m3_rc)
; oligos_6nt_mkv4_m5 versus dyads_m3_rc; m=7/33; ncol2=14; w=0; offset=2; strand=R; shift=9; score=0.706844; ---------gtGyGTGTGTrTgt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 413 415 154 163 75 76 92 38 88 38 1851 76 439 310 c 0 0 0 0 0 0 0 0 0 343 632 135 1901 79 91 46 79 48 56 73 87 308 397 g 0 0 0 0 0 0 0 0 0 1815 346 2562 122 2755 58 2769 26 2764 50 931 99 1831 450 t 0 0 0 0 0 0 0 0 0 395 1573 115 780 57 2741 59 2823 66 2822 111 2704 388 1809

oligos_6nt_mkv4_m2_rc_shift6 (oligos_6nt_mkv4_m2_rc)
; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m2_rc; m=8/33; ncol2=16; w=-1; offset=-1; strand=R; shift=6; score=0.697932; ------tgkGTGTrTGTGwGtg- ; cor=; Ncor= a 0 0 0 0 0 0 421 362 158 100 83 79 61 1618 50 69 71 78 840 208 394 410 0 c 0 0 0 0 0 0 432 382 215 95 70 38 26 41 50 23 68 33 231 117 379 219 0 g 0 0 0 0 0 0 465 1338 1092 2225 94 2331 75 757 70 2376 82 2340 137 1970 351 1513 0 t 0 0 0 0 0 0 1178 414 1031 76 2249 48 2334 80 2326 28 2275 45 1288 201 1372 354 0

oligos_7nt_mkv5_m5_rc_shift6 (oligos_7nt_mkv5_m5_rc)
; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m5_rc; m=9/33; ncol2=14; w=-1; offset=-1; strand=R; shift=6; score=0.694767; ------tgkGTGTGCGTGtg--- ; cor=; Ncor= a 0 0 0 0 0 0 501 418 166 38 69 62 55 56 82 45 114 206 388 389 0 0 0 c 0 0 0 0 0 0 545 526 155 67 60 21 64 40 2153 48 87 123 595 280 0 0 0 g 0 0 0 0 0 0 628 1283 1562 2700 70 2733 45 2718 96 2713 95 2317 359 1722 0 0 0 t 0 0 0 0 0 0 1177 624 968 46 2652 35 2687 37 520 45 2555 205 1509 460 0 0 0

positions_6nt_m4_shift2 (positions_6nt_m4)
; oligos_6nt_mkv4_m5 versus positions_6nt_m4; m=10/33; ncol2=23; w=-5; offset=-5; strand=D; shift=2; score=0.628716; --tgTGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 1869 1940 1481 1344 1840 623 372 436 277 498 231 457 573 405 426 408 499 528 1543 1258 1354 c 0 0 2802 1645 2135 1065 1900 370 599 151 686 134 463 155 2637 178 555 155 837 257 1774 699 1813 g 0 0 1953 10414 1328 12216 827 14220 213 14801 85 14762 73 14723 251 14711 140 14693 207 14293 911 12206 1415 t 0 0 8945 1570 10625 944 11002 356 14385 181 14521 175 14802 234 12108 275 14448 313 14026 491 11341 1406 10987

dyads_m9_rc_shift10 (dyads_m9_rc)
; oligos_6nt_mkv4_m5 versus dyads_m9_rc; m=11/33; ncol2=13; w=0; offset=3; strand=R; shift=10; score=0.627056; ----------tgkGTGTGTATgt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 391 371 143 66 61 77 50 91 26 1755 47 384 266 c 0 0 0 0 0 0 0 0 0 0 440 430 149 65 26 34 36 51 26 45 52 252 318 g 0 0 0 0 0 0 0 0 0 0 522 1114 1376 2267 85 2298 72 2255 46 532 85 1452 426 t 0 0 0 0 0 0 0 0 0 0 1082 520 767 37 2263 26 2277 38 2337 103 2251 347 1425

positions_6nt_m6_rc_shift5 (positions_6nt_m6_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m6_rc; m=12/33; ncol2=24; w=-2; offset=-2; strand=R; shift=5; score=0.61447; -----gtGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 1244 1142 820 1256 194 189 204 139 193 331 227 127 141 140 223 178 300 631 c 0 0 0 0 0 1023 1499 660 1051 129 337 54 217 60 1952 105 195 49 300 61 256 151 1076 g 0 0 0 0 0 6677 1066 7825 511 9519 85 9636 49 9623 131 9499 64 9641 71 9522 169 9166 1286 t 0 0 0 0 0 1014 6251 653 7140 116 9347 64 9553 82 7544 127 9572 127 9447 152 9355 341 6965

positions_6nt_m5_rc_shift7 (positions_6nt_m5_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m5_rc; m=13/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.614194; -------GTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 782 585 250 169 221 115 249 218 207 79 148 62 142 76 1024 106 c 0 0 0 0 0 0 0 669 905 162 347 81 278 61 1330 93 172 47 195 55 168 190 189 g 0 0 0 0 0 0 0 5039 524 6581 111 6732 58 6728 103 6720 39 6841 34 6839 95 5545 113 t 0 0 0 0 0 0 0 629 5105 126 6492 85 6668 81 5468 99 6829 83 6828 83 6780 360 6711

positions_7nt_m8_rc_shift7 (positions_7nt_m8_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m8_rc; m=14/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.614008; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1309 1016 546 385 471 280 509 393 445 194 325 148 296 171 1345 221 c 0 0 0 0 0 0 0 1196 1646 454 873 216 671 203 2065 208 416 123 420 121 309 306 382 g 0 0 0 0 0 0 0 7237 883 9432 253 9861 173 9898 222 9967 77 10189 64 10254 128 8652 155 t 0 0 0 0 0 0 0 1063 7260 373 9294 257 9681 195 8125 185 10118 168 10173 134 10197 502 10047

positions_6nt_m10_rc_shift3 (positions_6nt_m10_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m10_rc; m=15/33; ncol2=24; w=-4; offset=-4; strand=R; shift=3; score=0.61227; ---gtGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 1468 1221 1246 930 1127 343 383 185 371 139 416 330 329 162 279 156 326 191 1835 426 c 0 0 0 1480 2000 1142 1444 1280 536 220 513 135 387 138 2051 159 316 109 413 135 387 411 769 g 0 0 0 7303 1307 8314 953 8556 287 10912 124 11035 64 11004 173 11051 68 11129 86 11008 183 8621 510 t 0 0 0 1442 7165 991 8366 730 10527 178 10871 152 11103 135 9139 154 11147 176 11038 224 10932 826 9988

positions_7nt_m4_rc_shift5 (positions_7nt_m4_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m4_rc; m=16/33; ncol2=24; w=-2; offset=-2; strand=R; shift=5; score=0.612207; -----gtgTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 1282 1138 1133 484 448 286 450 198 459 334 405 158 274 144 303 173 1329 202 c 0 0 0 0 0 1302 1605 965 665 322 669 188 500 185 1863 186 333 121 377 120 292 320 362 g 0 0 0 0 0 6419 1148 6894 448 9195 179 9390 117 9408 184 9478 70 9669 64 9637 136 8039 174 t 0 0 0 0 0 1215 6327 1226 8621 253 9084 190 9403 166 7837 149 9657 154 9633 158 9617 530 9480

positions_6nt_m8_rc_shift6 (positions_6nt_m8_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m8_rc; m=17/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.611056; ------tGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1160 1239 510 493 307 475 212 495 354 427 172 302 156 329 193 1372 241 c 0 0 0 0 0 0 1801 1073 784 346 754 203 565 193 1914 194 382 129 432 140 365 347 451 g 0 0 0 0 0 0 1158 7963 440 10108 186 10324 113 10341 187 10408 74 10602 69 10552 157 8887 197 t 0 0 0 0 0 0 7092 936 9477 264 9964 209 10321 182 8756 182 10583 178 10554 190 10496 605 10322

positions_7nt_m6_rc_shift6 (positions_7nt_m6_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m6_rc; m=18/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.60986; ------tGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1504 1590 684 642 371 606 268 567 468 569 278 432 231 424 258 528 399 c 0 0 0 0 0 0 2360 1342 1092 414 974 260 731 241 2462 263 563 181 628 188 559 253 743 g 0 0 0 0 0 0 1533 10480 562 13243 217 13515 138 13581 248 13557 115 13783 94 13684 179 13318 452 t 0 0 0 0 0 0 9253 1238 12312 351 13088 269 13513 261 11472 261 13694 254 13697 354 13654 551 13056

positions_7nt_m5_rc_shift3 (positions_7nt_m5_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m5_rc; m=19/33; ncol2=24; w=-4; offset=-4; strand=R; shift=3; score=0.60839; ---gtGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 1011 789 599 307 1563 172 300 127 269 81 238 256 241 119 201 136 239 136 288 218 c 0 0 0 986 1294 508 531 396 369 119 314 94 241 85 1413 98 242 83 316 98 320 158 409 g 0 0 0 6003 774 7395 299 6562 154 8377 70 8441 39 8486 116 8442 55 8461 51 8348 133 8101 323 t 0 0 0 896 6039 394 7759 375 8201 100 8385 92 8535 87 7111 115 8480 151 8393 211 8307 349 7946

positions_7nt_m2_rc_shift1 (positions_7nt_m2_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m2_rc; m=20/33; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.608155; -GTGTGTGTGTGTGTGTGTGTgT ; cor=; Ncor= a 0 899 703 349 190 305 147 1345 111 229 100 225 89 208 236 239 132 238 156 292 214 1599 464 c 0 793 1117 245 392 126 368 236 235 97 281 63 209 63 1247 108 237 90 333 131 419 328 639 g 0 5681 572 7206 134 7486 123 6214 74 7661 59 7704 42 7707 132 7574 81 7560 116 7405 252 5476 632 t 0 696 5677 269 7353 152 7431 274 7649 82 7629 77 7729 91 6454 148 7619 181 7464 241 7184 666 6334

positions_7nt_m1_rc_shift0 (positions_7nt_m1_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m1_rc; m=21/33; ncol2=24; w=-7; offset=-7; strand=R; shift=0; score=0.604415; tGTGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 892 977 464 570 236 1546 178 304 117 245 87 227 100 223 278 223 147 243 180 340 291 775 771 c 1393 933 787 390 443 356 357 121 220 78 246 55 228 80 1413 110 307 105 475 165 497 380 1135 g 954 6223 474 7636 242 6672 147 8367 63 8506 41 8541 42 8486 145 8387 77 8297 155 8011 420 5720 1210 t 5670 776 7184 313 7988 335 8227 117 8509 80 8535 86 8539 120 7073 189 8378 264 8099 393 7701 2034 5793

positions_6nt_m3_rc_shift7 (positions_6nt_m3_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m3_rc; m=22/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.604324; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 763 643 617 213 204 96 196 80 1028 73 143 59 134 66 389 98 c 0 0 0 0 0 0 0 772 882 746 252 138 182 96 181 197 148 78 121 42 120 158 136 g 0 0 0 0 0 0 0 4311 642 4713 184 6030 84 6106 60 5061 49 6196 25 6244 58 5226 94 t 0 0 0 0 0 0 0 637 4316 407 5834 111 6121 85 6162 197 6213 66 6278 63 6239 710 6155

positions_6nt_m9_rc_shift6 (positions_6nt_m9_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m9_rc; m=23/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.603533; ------tgTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1029 1214 831 1037 413 406 182 352 131 382 137 685 123 250 122 286 162 c 0 0 0 0 0 0 1728 1164 1238 1235 525 272 354 167 318 155 308 275 213 118 186 119 267 g 0 0 0 0 0 0 1189 6407 859 6900 314 8948 146 9128 71 9123 103 8031 103 9295 89 9220 128 t 0 0 0 0 0 0 5864 1025 6882 638 8558 184 9128 163 9290 150 9262 819 9371 147 9413 185 9253

positions_7nt_m10_rc_shift7 (positions_7nt_m10_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m10_rc; m=24/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.602339; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1340 1101 1137 525 475 259 434 157 403 186 742 165 281 157 310 190 c 0 0 0 0 0 0 0 1328 1683 1253 667 330 484 199 417 176 417 331 268 129 361 117 327 g 0 0 0 0 0 0 0 6806 1177 7432 432 9615 201 9842 105 9932 135 8714 125 10130 69 10084 83 t 0 0 0 0 0 0 0 1199 6712 851 9049 253 9729 198 9994 162 9935 886 10115 133 10086 162 10073

positions_6nt_m1_rc_shift6 (positions_6nt_m1_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m1_rc; m=25/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.601289; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1111 1256 1027 1006 336 335 138 322 130 1646 160 286 107 228 68 251 154 c 0 0 0 0 0 0 1827 1211 1449 814 422 201 272 128 270 304 255 102 181 87 181 80 260 g 0 0 0 0 0 0 1360 6633 1249 7183 313 9532 107 9678 117 7946 85 9760 60 9816 64 9728 189 t 0 0 0 0 0 0 5953 1151 6526 1248 9180 183 9734 123 9734 355 9751 103 9903 120 9938 192 9648

dyads_m1_rc_shift6 (dyads_m1_rc)
; oligos_6nt_mkv4_m5 versus dyads_m1_rc; m=26/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.600475; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1761 1900 1262 1017 719 776 416 710 305 619 265 559 286 519 303 528 375 c 0 0 0 0 0 0 2869 1699 3714 799 1375 453 1076 316 778 250 646 215 577 195 601 199 840 g 0 0 0 0 0 0 1821 10161 1103 12789 530 13607 285 13915 162 14125 120 14219 116 14223 154 14154 248 t 0 0 0 0 0 0 8820 1511 9192 666 12647 435 13494 330 14026 277 14240 278 14292 334 14213 390 13808

positions_7nt_m3_rc_shift6 (positions_7nt_m3_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m3_rc; m=27/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.600368; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1213 1267 1364 527 362 429 209 395 214 1431 168 300 148 297 147 315 388 c 0 0 0 0 0 0 1773 1184 1323 447 572 191 424 179 460 323 291 112 315 71 274 94 1714 g 0 0 0 0 0 0 1215 6578 783 8727 267 9198 142 9300 135 7899 104 9514 68 9569 57 9454 230 t 0 0 0 0 0 0 5839 1011 6570 339 8839 222 9265 166 9231 387 9477 114 9509 103 9562 177 7708

dyads_m8_rc_shift6 (dyads_m8_rc)
; oligos_6nt_mkv4_m5 versus dyads_m8_rc; m=28/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.600145; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1765 1875 1252 1018 723 819 410 710 289 645 246 574 282 550 300 555 332 c 0 0 0 0 0 0 2869 1726 3745 819 1373 462 1093 313 745 262 637 209 557 197 592 223 649 g 0 0 0 0 0 0 1857 10264 1125 12885 530 13684 266 14072 170 14210 129 14354 122 14348 177 14205 246 t 0 0 0 0 0 0 8918 1544 9287 687 12783 444 13640 314 14205 292 14397 272 14448 314 14340 426 14182

positions_7nt_m9_rc_shift6 (positions_7nt_m9_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m9_rc; m=29/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.598842; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1341 1371 974 539 328 416 166 399 165 1676 178 322 147 309 150 367 239 c 0 0 0 0 0 0 1995 1266 1536 441 537 207 372 170 388 323 340 119 246 118 299 133 419 g 0 0 0 0 0 0 1380 8048 1343 10512 246 11039 129 11169 107 9462 96 11287 78 11259 104 11115 279 t 0 0 0 0 0 0 7165 1196 8028 389 10770 219 11214 143 11221 420 11267 153 11410 195 11328 266 10944

oligos_7nt_mkv5_m9_rc_shift7 (oligos_7nt_mkv5_m9_rc)
; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m9_rc; m=30/33; ncol2=13; w=0; offset=0; strand=R; shift=7; score=0.59826; -------ktTTGTGTsTGtg--- ; cor=; Ncor= a 0 0 0 0 0 0 0 270 323 42 35 26 13 49 15 96 71 140 218 284 0 0 0 c 0 0 0 0 0 0 0 324 334 71 49 57 39 68 34 1213 111 183 389 315 0 0 0 g 0 0 0 0 0 0 0 796 432 298 36 1761 23 1715 44 472 176 1425 301 845 0 0 0 t 0 0 0 0 0 0 0 494 795 1473 1764 40 1809 52 1791 103 1526 136 976 440 0 0 0

positions_7nt_m7_rc_shift7 (positions_7nt_m7_rc)
; oligos_6nt_mkv4_m5 versus positions_7nt_m7_rc; m=31/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.595972; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1292 1102 651 494 600 539 530 262 437 164 355 164 1356 186 379 210 c 0 0 0 0 0 0 0 1313 2014 513 974 303 2504 268 566 151 521 148 313 258 346 140 312 g 0 0 0 0 0 0 0 7524 985 9636 353 10067 348 10237 139 10478 73 10644 124 9231 118 10557 121 t 0 0 0 0 0 0 0 1139 7167 468 9447 298 7877 233 10301 202 10510 121 10667 423 10618 192 10625

positions_6nt_m7_rc_shift6 (positions_6nt_m7_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m7_rc; m=32/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.594245; ------TGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 446 534 115 153 85 165 153 132 59 96 38 114 47 899 65 110 76 c 0 0 0 0 0 0 726 357 232 59 174 50 1094 63 122 36 138 36 99 127 136 73 160 g 0 0 0 0 0 0 485 4753 109 5709 54 5722 73 5736 31 5806 25 5793 62 4694 79 5668 114 t 0 0 0 0 0 0 4340 353 5541 76 5684 60 4677 66 5785 59 5796 54 5789 277 5717 146 5647

positions_6nt_m2_rc_shift3 (positions_6nt_m2_rc)
; oligos_6nt_mkv4_m5 versus positions_6nt_m2_rc; m=33/33; ncol2=24; w=-4; offset=-4; strand=R; shift=3; score=0.591549; ---gtGtGTGTGTGyGTGTGtkk ; cor=; Ncor= a 0 0 0 690 657 490 890 143 110 100 65 114 72 125 230 106 117 146 140 223 461 704 653 c 0 0 0 586 904 386 609 91 132 34 173 33 113 57 1466 67 151 56 280 133 830 428 682 g 0 0 0 3623 638 4284 347 5169 63 5331 32 5314 30 5239 121 5231 74 5173 124 4839 1221 2553 1977 t 0 0 0 615 3315 354 3668 111 5209 49 5244 53 5299 93 3697 110 5172 139 4970 319 3002 1829 2202

One-to-n matrix alignment; reference matrix: positions_7nt_m7_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m7; m=0 (reference); ncol1=24; shift=1; ncol=25; -acaCACACACACACACACACACac ; Alignment reference a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_7nt_m7 versus positions_7nt_m7; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_7nt_m7 versus positions_7nt_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992676; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_7nt_m7 versus positions_7nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989114; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m7 versus positions_6nt_m3; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989078; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_7nt_m7 versus positions_7nt_m2; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98897; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_7nt_m7 versus positions_7nt_m5; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988678; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_7nt_m7 versus positions_7nt_m4; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988394; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_7nt_m7 versus positions_6nt_m10; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986611; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_7nt_m7 versus positions_6nt_m5; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985185; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_7nt_m7 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.97723; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_7nt_m7 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.949186; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_7nt_m7 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.914381; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

dyads_m8_shift2 (dyads_m8)
; positions_7nt_m7 versus dyads_m8; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.91296; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

dyads_m1_shift2 (dyads_m1)
; positions_7nt_m7 versus dyads_m1; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912933; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_7nt_m7 versus positions_7nt_m3; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score= 0.9119; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_7nt_m7 versus positions_6nt_m9; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score= 0.9112; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_6nt_m8_shift0 (positions_6nt_m8)
; positions_7nt_m7 versus positions_6nt_m8; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910919; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_7nt_m7 versus positions_7nt_m6; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910452; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_7nt_m7 versus positions_7nt_m1; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908749; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0

positions_7nt_m9_shift0 (positions_7nt_m9)
; positions_7nt_m7 versus positions_7nt_m9; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.907712; caCACACACACACACACACACaca- ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 0 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 0 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 0 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341 0

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_7nt_m7 versus positions_6nt_m1; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.906762; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_7nt_m7 versus positions_6nt_m7; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.905653; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

dyads_m2_shift2 (dyads_m2)
; positions_7nt_m7 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.810574; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0

dyads_m10_shift5 (dyads_m10)
; positions_7nt_m7 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=4; strand=D; shift=5; score=0.740588; -----ACACACACACACACrCAC-- ; cor=; Ncor= a 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 c 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 g 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 t 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0

oligos_7nt_mkv5_m8_shift5 (oligos_7nt_mkv5_m8)
; positions_7nt_m7 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=4; strand=D; shift=5; score=0.660002; -----ACACACACACACACAC---- ; cor=; Ncor= a 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 0 c 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 0 g 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 0 t 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0 0

oligos_6nt_mkv4_m2_shift4 (oligos_6nt_mkv4_m2)
; positions_7nt_m7 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=3; strand=D; shift=4; score=0.60017; ----caCwCACAyACACmca----- ; cor=; Ncor= a 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 c 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 g 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 t 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0

oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m7 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.595972; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

dyads_m3_shift9 (dyads_m3)
; positions_7nt_m7 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=8; strand=D; shift=9; score=0.530209; ---------acAyACACACrCac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 c 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 g 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 t 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0

oligos_7nt_mkv5_m4_shift6 (oligos_7nt_mkv5_m4)
; positions_7nt_m7 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=5; strand=D; shift=6; score=0.52396; ------caCACAcACACac------ ; cor=; Ncor= a 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 c 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 g 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 t 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0

dyads_m7_shift1 (dyads_m7)
; positions_7nt_m7 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=0; strand=D; shift=1; score=0.510815; -acAyACACACAyac---------- ; cor=; Ncor= a 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 0 0 0 0 0 0 c 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 0 0 0 0 0 0 g 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 0 0 0 0 0 0 t 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m5_shift6 (oligos_7nt_mkv5_m5)
; positions_7nt_m7 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=5; strand=D; shift=6; score=0.484231; ------caCACGCACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 0 0 c 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 0 0 g 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 0 0 t 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0 0 0

dyads_m9_shift9 (dyads_m9)
; positions_7nt_m7 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=8; strand=D; shift=9; score=0.462789; ---------acATACACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 c 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 g 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 t 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0

oligos_7nt_mkv5_m9_shift2 (oligos_7nt_mkv5_m9)
; positions_7nt_m7 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=1; strand=D; shift=2; score=0.424122; --caCAsACACAAam---------- ; cor=; Ncor= a 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 0 0 0 0 c 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 0 0 0 0 g 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 0 0 0 0 t 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m10_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m10_shift0 (oligos_6nt_mkv4_m10)
; oligos_6nt_mkv4_m10; m=0 (reference); ncol1=12; shift=0; ncol=12; rrAAGCAAcgvr ; Alignment reference a 589 587 1758 1825 53 108 1816 1760 386 322 537 607 c 425 404 74 41 44 1659 28 38 1074 268 486 435 g 571 645 48 40 1811 132 55 87 288 1155 600 504 t 354 303 59 33 31 40 40 54 191 194 316 393

oligos_6nt_mkv4_m10_shift0 (oligos_6nt_mkv4_m10)
; oligos_6nt_mkv4_m10 versus oligos_6nt_mkv4_m10; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; rrAAGCAAcgvr ; cor=; Ncor= a 589 587 1758 1825 53 108 1816 1760 386 322 537 607 c 425 404 74 41 44 1659 28 38 1074 268 486 435 g 571 645 48 40 1811 132 55 87 288 1155 600 504 t 354 303 59 33 31 40 40 54 191 194 316 393

One-to-n matrix alignment; reference matrix: positions_6nt_m10_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_6nt_m10; m=0 (reference); ncol1=24; shift=1; ncol=25; -aCACACACACACACACACACACac ; Alignment reference a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_6nt_m10 versus positions_6nt_m10; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_6nt_m10 versus positions_7nt_m5; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992918; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_6nt_m10 versus positions_7nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989839; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_6nt_m10 versus positions_7nt_m4; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988773; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_6nt_m10 versus positions_7nt_m7; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986611; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_6nt_m10 versus positions_7nt_m8; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985973; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m10 versus positions_6nt_m3; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984008; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_6nt_m10 versus positions_7nt_m2; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98381; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_6nt_m10 versus positions_6nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.97928; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_6nt_m10 versus positions_6nt_m5; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976636; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_6nt_m10 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.947266; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m10 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.922918; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m1_shift0 (positions_6nt_m1)
; positions_6nt_m10 versus positions_6nt_m1; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914134; caCACACACACACACACACACaca- ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 0 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 0 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 0 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111 0

positions_7nt_m9_shift0 (positions_7nt_m9)
; positions_6nt_m10 versus positions_7nt_m9; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914062; caCACACACACACACACACACaca- ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 0 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 0 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 0 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341 0

positions_6nt_m9_shift0 (positions_6nt_m9)
; positions_6nt_m10 versus positions_6nt_m9; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913965; cACACACACACACACACACACAca- ; cor=; Ncor= a 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 0 c 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 0 g 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 0 t 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029 0

dyads_m8_shift0 (dyads_m8)
; positions_6nt_m10 versus dyads_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913599; cacACACACACACACACACACaca- ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 0 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 0 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 0 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765 0

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_6nt_m10 versus positions_7nt_m6; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912055; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

dyads_m1_shift0 (dyads_m1)
; positions_6nt_m10 versus dyads_m1; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.911324; caCaCACACACACACACACACaca- ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 0 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 0 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 0 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761 0

positions_6nt_m8_shift0 (positions_6nt_m8)
; positions_6nt_m10 versus positions_6nt_m8; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910347; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_6nt_m10 versus positions_7nt_m1; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909802; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0

positions_7nt_m3_shift0 (positions_7nt_m3)
; positions_6nt_m10 versus positions_7nt_m3; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908807; cACACACACACACACACACACaca- ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 0 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 0 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 0 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213 0

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_6nt_m10 versus positions_6nt_m7; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.899983; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

dyads_m2_shift4 (dyads_m2)
; positions_6nt_m10 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=4; score=0.817805; ----camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0

dyads_m10_shift3 (dyads_m10)
; positions_6nt_m10 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=2; strand=D; shift=3; score=0.739254; ---ACACACACACACACrCAC---- ; cor=; Ncor= a 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 c 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 g 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 t 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0

oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)
; positions_6nt_m10 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.658883; -------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0

oligos_6nt_mkv4_m5_rc_shift5 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m10 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=4; strand=R; shift=5; score=0.61227; -----acAsACACrCACAsac---- ; cor=; Ncor= a 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 c 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 g 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 t 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0

oligos_6nt_mkv4_m2_shift6 (oligos_6nt_mkv4_m2)
; positions_6nt_m10 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.591061; ------caCwCACAyACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 c 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 g 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 t 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0

dyads_m3_shift3 (dyads_m3)
; positions_6nt_m10 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=2; strand=D; shift=3; score=0.529293; ---acAyACACACrCac-------- ; cor=; Ncor= a 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 0 c 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 0 g 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 0 t 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m4_shift2 (oligos_7nt_mkv5_m4)
; positions_6nt_m10 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=1; strand=D; shift=2; score=0.52183; --caCACAcACACac---------- ; cor=; Ncor= a 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 0 c 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 0 g 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 0 t 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0 0

dyads_m7_shift9 (dyads_m7)
; positions_6nt_m10 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=8; strand=D; shift=9; score=0.51389; ---------acAyACACACAyac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0

oligos_7nt_mkv5_m5_shift8 (oligos_7nt_mkv5_m5)
; positions_6nt_m10 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.507545; --------caCACGCACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 c 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 g 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 t 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0

dyads_m9_shift3 (dyads_m9)
; positions_6nt_m10 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.463478; ---acATACACACmca--------- ; cor=; Ncor= a 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 0 0 c 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 0 0 g 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 0 0 t 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)
; positions_6nt_m10 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.427078; ----------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0

One-to-n matrix alignment; reference matrix: dyads_m3_shift10 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m3_shift10 (dyads_m3)
; dyads_m3; m=0 (reference); ncol1=14; shift=10; ncol=24; ----------acAyACACACrCac ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

dyads_m3_shift10 (dyads_m3)
; dyads_m3 versus dyads_m3; m=1/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score= 1; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

dyads_m7_shift10 (dyads_m7)
; dyads_m3 versus dyads_m7; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score=0.875018; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m9_shift10 (dyads_m9)
; dyads_m3 versus dyads_m9; m=3/33; ncol2=13; w=0; offset=0; strand=D; shift=10; score=0.856093; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)
; dyads_m3 versus oligos_7nt_mkv5_m4; m=4/33; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.780549; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

oligos_7nt_mkv5_m8_shift10 (oligos_7nt_mkv5_m8)
; dyads_m3 versus oligos_7nt_mkv5_m8; m=5/33; ncol2=16; w=0; offset=0; strand=D; shift=10; score=0.755625; ----------ACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 c 0 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 g 0 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 t 0 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839

oligos_6nt_mkv4_m5_rc_shift10 (oligos_6nt_mkv4_m5_rc)
; dyads_m3 versus oligos_6nt_mkv4_m5_rc; m=6/33; ncol2=16; w=0; offset=0; strand=R; shift=10; score=0.706844; ----------acAsACACrCACAs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 c 0 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 g 0 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 t 0 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62

dyads_m10_shift6 (dyads_m10)
; dyads_m3 versus dyads_m10; m=7/33; ncol2=18; w=-4; offset=-4; strand=D; shift=6; score=0.70574; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; dyads_m3 versus oligos_6nt_mkv4_m2; m=8/33; ncol2=16; w=-1; offset=-1; strand=D; shift=9; score=0.673448; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362

oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)
; dyads_m3 versus oligos_7nt_mkv5_m5; m=9/33; ncol2=14; w=-1; offset=-1; strand=D; shift=9; score=0.650552; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

oligos_7nt_mkv5_m9_shift9 (oligos_7nt_mkv5_m9)
; dyads_m3 versus oligos_7nt_mkv5_m9; m=10/33; ncol2=13; w=-1; offset=-1; strand=D; shift=9; score=0.610056; ---------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0

dyads_m2_shift5 (dyads_m2)
; dyads_m3 versus dyads_m2; m=11/33; ncol2=20; w=-5; offset=-5; strand=D; shift=5; score=0.602203; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; dyads_m3 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=-8; offset=-8; strand=R; shift=2; score=0.537673; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940

positions_7nt_m7_shift2 (positions_7nt_m7)
; dyads_m3 versus positions_7nt_m7; m=13/33; ncol2=24; w=-8; offset=-8; strand=D; shift=2; score=0.530209; --acaCACACACACACACACACAC ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651

positions_6nt_m10_shift8 (positions_6nt_m10)
; dyads_m3 versus positions_6nt_m10; m=14/33; ncol2=24; w=-2; offset=-2; strand=D; shift=8; score=0.529293; --------aCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 c 0 0 0 0 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 g 0 0 0 0 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 t 0 0 0 0 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371

positions_6nt_m5_shift4 (positions_6nt_m5)
; dyads_m3 versus positions_6nt_m5; m=15/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.528916; ----acamACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 c 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 g 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 t 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221

positions_6nt_m7_shift3 (positions_6nt_m7)
; dyads_m3 versus positions_6nt_m7; m=16/33; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.528643; ---cacamACACACACACACACAC ; cor=; Ncor= a 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 c 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 g 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 t 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153

positions_7nt_m2_shift10 (positions_7nt_m2)
; dyads_m3 versus positions_7nt_m2; m=17/33; ncol2=24; w=0; offset=0; strand=D; shift=10; score=0.527972; ----------aCAcACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 c 0 0 0 0 0 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 g 0 0 0 0 0 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 t 0 0 0 0 0 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225

positions_7nt_m8_shift4 (positions_7nt_m8)
; dyads_m3 versus positions_7nt_m8; m=18/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.527909; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 c 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 g 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 t 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471

positions_7nt_m4_shift6 (positions_7nt_m4)
; dyads_m3 versus positions_7nt_m4; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=6; score=0.527383; ------aCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 c 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 g 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 t 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450

positions_6nt_m8_shift5 (positions_6nt_m8)
; dyads_m3 versus positions_6nt_m8; m=20/33; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.525981; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 c 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 g 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 t 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475

positions_7nt_m6_shift5 (positions_7nt_m6)
; dyads_m3 versus positions_7nt_m6; m=21/33; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.519683; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 c 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 g 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 t 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606

positions_7nt_m5_shift8 (positions_7nt_m5)
; dyads_m3 versus positions_7nt_m5; m=22/33; ncol2=24; w=-2; offset=-2; strand=D; shift=8; score=0.518182; --------acAcACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 c 0 0 0 0 0 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 g 0 0 0 0 0 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 t 0 0 0 0 0 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269

positions_6nt_m6_shift6 (positions_6nt_m6)
; dyads_m3 versus positions_6nt_m6; m=23/33; ncol2=24; w=-4; offset=-4; strand=D; shift=6; score=0.515616; ------acaCacACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 c 0 0 0 0 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 g 0 0 0 0 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 t 0 0 0 0 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204

positions_7nt_m10_shift0 (positions_7nt_m10)
; dyads_m3 versus positions_7nt_m10; m=24/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.514275; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

dyads_m1_shift1 (dyads_m1)
; dyads_m3 versus dyads_m1; m=25/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.51351; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

dyads_m8_shift1 (dyads_m8)
; dyads_m3 versus dyads_m8; m=26/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.513508; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_6nt_m9_shift1 (positions_6nt_m9)
; dyads_m3 versus positions_6nt_m9; m=27/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.513488; -cACACACACACACACACACACAc ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_6nt_m2_shift0 (positions_6nt_m2)
; dyads_m3 versus positions_6nt_m2; m=28/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.512071; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m1_shift7 (positions_6nt_m1)
; dyads_m3 versus positions_6nt_m1; m=29/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.509644; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 c 0 0 0 0 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 g 0 0 0 0 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 t 0 0 0 0 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322

positions_7nt_m9_shift7 (positions_7nt_m9)
; dyads_m3 versus positions_7nt_m9; m=30/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.50956; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 c 0 0 0 0 0 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 g 0 0 0 0 0 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 t 0 0 0 0 0 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399

positions_6nt_m3_shift4 (positions_6nt_m3)
; dyads_m3 versus positions_6nt_m3; m=31/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.507186; ----acrCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 c 0 0 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 g 0 0 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 t 0 0 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204

positions_7nt_m3_shift1 (positions_7nt_m3)
; dyads_m3 versus positions_7nt_m3; m=32/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.506723; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_7nt_m1_shift1 (positions_7nt_m1)
; dyads_m3 versus positions_7nt_m1; m=33/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.506059; -cacACACACACACACACACACAC ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

One-to-n matrix alignment; reference matrix: positions_7nt_m9_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_7nt_m9; m=0 (reference); ncol1=24; shift=1; ncol=25; -caCACACACACACACACACACaca ; Alignment reference a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_7nt_m9 versus positions_7nt_m9; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_7nt_m9 versus positions_6nt_m1; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.997447; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_7nt_m9 versus positions_7nt_m6; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.994543; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

dyads_m8_shift1 (dyads_m8)
; positions_7nt_m9 versus dyads_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993808; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_7nt_m9 versus positions_7nt_m3; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992586; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

dyads_m1_shift1 (dyads_m1)
; positions_7nt_m9 versus dyads_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992536; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_7nt_m9 versus positions_6nt_m9; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991145; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_7nt_m9 versus positions_6nt_m8; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.990393; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m9 versus positions_7nt_m1; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988315; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_7nt_m9 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98038; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_7nt_m9 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.94793; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_7nt_m9 versus positions_6nt_m10; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914062; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_7nt_m9 versus positions_7nt_m10; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913311; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_7nt_m4_shift2 (positions_7nt_m4)
; positions_7nt_m9 versus positions_7nt_m4; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910244; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_7nt_m9 versus positions_6nt_m3; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910025; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0

positions_7nt_m8_shift0 (positions_7nt_m8)
; positions_7nt_m9 versus positions_7nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909657; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_7nt_m9 versus positions_6nt_m5; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909187; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_7nt_m9 versus positions_7nt_m2; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908633; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_7nt_m5_shift2 (positions_7nt_m5)
; positions_7nt_m9 versus positions_7nt_m5; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908105; --acAcACACACACACACACACACa ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789

positions_7nt_m7_shift2 (positions_7nt_m7)
; positions_7nt_m9 versus positions_7nt_m7; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.907712; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_7nt_m9 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.906464; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_7nt_m9 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.866985; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_7nt_m9 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score= 0.819; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift6 (dyads_m10)
; positions_7nt_m9 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=5; strand=D; shift=6; score=0.739874; ------ACACACACACACACrCAC- ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; positions_7nt_m9 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.662263; --------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; positions_7nt_m9 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.603954; -------caCwCACAyACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_7nt_m9 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.598842; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)
; positions_7nt_m9 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=8; strand=D; shift=9; score=0.52407; ---------caCACAcACACac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0

dyads_m7_shift4 (dyads_m7)
; positions_7nt_m9 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.523454; ----acAyACACACAyac------- ; cor=; Ncor= a 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 0 0 0 c 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 0 0 0 g 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 0 0 0 t 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0 0 0 0

dyads_m3_shift4 (dyads_m3)
; positions_7nt_m9 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.50956; ----acAyACACACrCac------- ; cor=; Ncor= a 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 c 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 g 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 t 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; positions_7nt_m9 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.496792; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift12 (dyads_m9)
; positions_7nt_m9 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.477947; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; positions_7nt_m9 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.430438; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m4_shift11 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=13; shift=11; ncol=24; -----------caCACAcACACac ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m4; m=1/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score= 1; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m5; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=11; score=0.799822; -----------caCACGCACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418

oligos_7nt_mkv5_m8_shift10 (oligos_7nt_mkv5_m8)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m8; m=3/33; ncol2=16; w=-1; offset=-1; strand=D; shift=10; score=0.793847; ----------ACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 c 0 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 g 0 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 t 0 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839

dyads_m7_shift10 (dyads_m7)
; oligos_7nt_mkv5_m4 versus dyads_m7; m=4/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.781989; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m3_shift10 (dyads_m3)
; oligos_7nt_mkv5_m4 versus dyads_m3; m=5/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.780549; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m9; m=6/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score=0.779584; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; oligos_7nt_mkv5_m4 versus oligos_6nt_mkv4_m2; m=7/33; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.758749; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362

dyads_m9_shift12 (dyads_m9)
; oligos_7nt_mkv5_m4 versus dyads_m9; m=8/33; ncol2=13; w=0; offset=1; strand=D; shift=12; score=0.726857; ------------acATACACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371

oligos_6nt_mkv4_m5_rc_shift10 (oligos_6nt_mkv4_m5_rc)
; oligos_7nt_mkv5_m4 versus oligos_6nt_mkv4_m5_rc; m=9/33; ncol2=16; w=-1; offset=-1; strand=R; shift=10; score=0.711097; ----------acAsACACrCACAs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 c 0 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 g 0 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 t 0 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62

dyads_m10_shift8 (dyads_m10)
; oligos_7nt_mkv5_m4 versus dyads_m10; m=10/33; ncol2=18; w=-3; offset=-3; strand=D; shift=8; score=0.701278; --------ACACACACACACACrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 c 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 g 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 t 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380

dyads_m2_shift5 (dyads_m2)
; oligos_7nt_mkv5_m4 versus dyads_m2; m=11/33; ncol2=20; w=-6; offset=-6; strand=D; shift=5; score=0.621585; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822

positions_6nt_m4_rc_shift4 (positions_6nt_m4_rc)
; oligos_7nt_mkv5_m4 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=-7; offset=-7; strand=R; shift=4; score= 0.5443; ----acACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 c 0 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 g 0 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 t 0 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344

positions_6nt_m9_shift11 (positions_6nt_m9)
; oligos_7nt_mkv5_m4 versus positions_6nt_m9; m=13/33; ncol2=24; w=0; offset=0; strand=D; shift=11; score=0.530419; -----------cACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 c 0 0 0 0 0 0 0 0 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 g 0 0 0 0 0 0 0 0 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 t 0 0 0 0 0 0 0 0 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685

positions_6nt_m3_shift2 (positions_6nt_m3)
; oligos_7nt_mkv5_m4 versus positions_6nt_m3; m=14/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.529128; --acrCACACACACACACACACAC ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617

positions_6nt_m5_shift8 (positions_6nt_m5)
; oligos_7nt_mkv5_m4 versus positions_6nt_m5; m=15/33; ncol2=24; w=-3; offset=-3; strand=D; shift=8; score=0.526625; --------acamACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 c 0 0 0 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 g 0 0 0 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 t 0 0 0 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207

positions_7nt_m2_shift0 (positions_7nt_m2)
; oligos_7nt_mkv5_m4 versus positions_7nt_m2; m=16/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.526509; aCAcACACACACACACACACACAC ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m4_shift10 (positions_7nt_m4)
; oligos_7nt_mkv5_m4 versus positions_7nt_m4; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=10; score=0.526506; ----------aCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 c 0 0 0 0 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 g 0 0 0 0 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 t 0 0 0 0 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405

positions_6nt_m8_shift9 (positions_6nt_m8)
; oligos_7nt_mkv5_m4 versus positions_6nt_m8; m=18/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.526451; ---------caCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 c 0 0 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 g 0 0 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 t 0 0 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427

positions_6nt_m7_shift7 (positions_6nt_m7)
; oligos_7nt_mkv5_m4 versus positions_6nt_m7; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.52645; -------cacamACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 c 0 0 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 g 0 0 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 t 0 0 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132

positions_6nt_m1_shift3 (positions_6nt_m1)
; oligos_7nt_mkv5_m4 versus positions_6nt_m1; m=20/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.526094; ---caCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 c 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 g 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 t 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006

positions_7nt_m8_shift8 (positions_7nt_m8)
; oligos_7nt_mkv5_m4 versus positions_7nt_m8; m=21/33; ncol2=24; w=-3; offset=-3; strand=D; shift=8; score=0.524722; --------acaCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 c 0 0 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 g 0 0 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 t 0 0 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445

dyads_m8_shift9 (dyads_m8)
; oligos_7nt_mkv5_m4 versus dyads_m8; m=22/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.524165; ---------cacACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 c 0 0 0 0 0 0 0 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 g 0 0 0 0 0 0 0 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 t 0 0 0 0 0 0 0 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645

positions_7nt_m9_shift3 (positions_7nt_m9)
; oligos_7nt_mkv5_m4 versus positions_7nt_m9; m=23/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.52407; ---caCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 c 0 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 g 0 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 t 0 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539

positions_7nt_m7_shift6 (positions_7nt_m7)
; oligos_7nt_mkv5_m4 versus positions_7nt_m7; m=24/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.52396; ------acaCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 c 0 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 g 0 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 t 0 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530

positions_7nt_m10_shift4 (positions_7nt_m10)
; oligos_7nt_mkv5_m4 versus positions_7nt_m10; m=25/33; ncol2=24; w=-7; offset=-7; strand=D; shift=4; score=0.523934; ----aCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 c 0 0 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 g 0 0 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 t 0 0 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475

positions_7nt_m3_shift3 (positions_7nt_m3)
; oligos_7nt_mkv5_m4 versus positions_7nt_m3; m=26/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.523698; ---cACACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 c 0 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 g 0 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 t 0 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527

dyads_m1_shift9 (dyads_m1)
; oligos_7nt_mkv5_m4 versus dyads_m1; m=27/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.523469; ---------caCaCACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 c 0 0 0 0 0 0 0 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 g 0 0 0 0 0 0 0 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 t 0 0 0 0 0 0 0 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619

positions_7nt_m6_shift7 (positions_7nt_m6)
; oligos_7nt_mkv5_m4 versus positions_7nt_m6; m=28/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.522556; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 c 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 g 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 t 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567

positions_7nt_m5_shift0 (positions_7nt_m5)
; oligos_7nt_mkv5_m4 versus positions_7nt_m5; m=29/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.521994; acAcACACACACACACACACACac ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_6nt_m10_shift10 (positions_6nt_m10)
; oligos_7nt_mkv5_m4 versus positions_6nt_m10; m=30/33; ncol2=24; w=-1; offset=-1; strand=D; shift=10; score=0.52183; ----------aCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 c 0 0 0 0 0 0 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 g 0 0 0 0 0 0 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 t 0 0 0 0 0 0 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416

positions_6nt_m6_shift2 (positions_6nt_m6)
; oligos_7nt_mkv5_m4 versus positions_6nt_m6; m=31/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.521506; --acaCacACACACACACACACAC ; cor=; Ncor= a 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 c 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 g 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 t 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820

positions_7nt_m1_shift9 (positions_7nt_m1)
; oligos_7nt_mkv5_m4 versus positions_7nt_m1; m=32/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.521002; ---------cacACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 c 0 0 0 0 0 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 g 0 0 0 0 0 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 t 0 0 0 0 0 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245

positions_6nt_m2_shift0 (positions_6nt_m2)
; oligos_7nt_mkv5_m4 versus positions_6nt_m2; m=33/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.519417; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

One-to-n matrix alignment; reference matrix: positions_6nt_m6_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_6nt_m6; m=0 (reference); ncol1=24; shift=1; ncol=25; -acaCacACACACACACACACACac ; Alignment reference a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_6nt_m6 versus positions_6nt_m6; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_6nt_m6 versus positions_7nt_m10; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.981508; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_6nt_m6 versus positions_6nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.97928; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_6nt_m6 versus positions_7nt_m4; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.978349; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_6nt_m6 versus positions_7nt_m8; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.978059; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_6nt_m6 versus positions_7nt_m2; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977234; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_6nt_m6 versus positions_7nt_m7; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.97723; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_6nt_m6 versus positions_7nt_m5; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977196; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_6nt_m6 versus positions_6nt_m5; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976777; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m6 versus positions_6nt_m3; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.974865; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m6 versus positions_6nt_m2; m=11/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.959159; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_6nt_m6 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.937625; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_7nt_m6_shift0 (positions_7nt_m6)
; positions_6nt_m6 versus positions_7nt_m6; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91213; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0

dyads_m1_shift2 (dyads_m1)
; positions_6nt_m6 versus dyads_m1; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908829; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

dyads_m8_shift2 (dyads_m8)
; positions_6nt_m6 versus dyads_m8; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908007; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_7nt_m9_shift2 (positions_7nt_m9)
; positions_6nt_m6 versus positions_7nt_m9; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.906464; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_6nt_m6 versus positions_6nt_m1; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.904567; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_6nt_m8_shift0 (positions_6nt_m8)
; positions_6nt_m6 versus positions_6nt_m8; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.901993; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_6nt_m6 versus positions_6nt_m9; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.900826; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_6nt_m6 versus positions_7nt_m3; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.900492; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m7_shift2 (positions_6nt_m7)
; positions_6nt_m6 versus positions_6nt_m7; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.900059; --cacamACACACACACACACACAC ; cor=; Ncor= a 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 c 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 g 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 t 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534

positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_6nt_m6 versus positions_7nt_m1; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.899584; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

dyads_m2_shift4 (dyads_m2)
; positions_6nt_m6 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=4; score=0.81798; ----camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0

dyads_m10_shift7 (dyads_m10)
; positions_6nt_m6 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=7; score=0.738978; -------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)
; positions_6nt_m6 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.657234; -------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0

oligos_6nt_mkv4_m5_rc_shift7 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m6 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=6; strand=R; shift=7; score=0.61447; -------acAsACACrCACAsac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 c 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 g 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 t 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; positions_6nt_m6 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.592896; --------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)
; positions_6nt_m6 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.521506; ----------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; positions_6nt_m6 versus oligos_7nt_mkv5_m5; m=29/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.517106; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m3_shift5 (dyads_m3)
; positions_6nt_m6 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=4; strand=D; shift=5; score=0.515616; -----acAyACACACrCac------ ; cor=; Ncor= a 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 c 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 g 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 t 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0

dyads_m7_shift11 (dyads_m7)
; positions_6nt_m6 versus dyads_m7; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.506416; -----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m9_shift11 (dyads_m9)
; positions_6nt_m6 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.45629; -----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

oligos_7nt_mkv5_m9_shift12 (oligos_7nt_mkv5_m9)
; positions_6nt_m6 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.418999; ------------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

One-to-n matrix alignment; reference matrix: dyads_m9_shift11 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m9_shift11 (dyads_m9)
; dyads_m9; m=0 (reference); ncol1=13; shift=11; ncol=24; -----------acATACACACmca ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

dyads_m9_shift11 (dyads_m9)
; dyads_m9 versus dyads_m9; m=1/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score= 1; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

dyads_m3_shift11 (dyads_m3)
; dyads_m9 versus dyads_m3; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=11; score=0.856093; -----------acAyACACACrCa ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 c 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 g 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 t 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415

dyads_m7_shift11 (dyads_m7)
; dyads_m9 versus dyads_m7; m=3/33; ncol2=14; w=0; offset=0; strand=D; shift=11; score=0.847495; -----------acAyACACACAya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; dyads_m9 versus oligos_7nt_mkv5_m5; m=4/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.735088; ----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)
; dyads_m9 versus oligos_7nt_mkv5_m4; m=5/33; ncol2=13; w=-1; offset=-1; strand=D; shift=10; score=0.726857; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0

oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)
; dyads_m9 versus oligos_7nt_mkv5_m8; m=6/33; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.676143; ---------ACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929

oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)
; dyads_m9 versus oligos_7nt_mkv5_m9; m=7/33; ncol2=13; w=-1; offset=-1; strand=D; shift=10; score=0.66505; ----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; dyads_m9 versus oligos_6nt_mkv4_m2; m=8/33; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.659322; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_6nt_mkv4_m5_rc_shift11 (oligos_6nt_mkv4_m5_rc)
; dyads_m9 versus oligos_6nt_mkv4_m5_rc; m=9/33; ncol2=16; w=0; offset=0; strand=R; shift=11; score=0.627056; -----------acAsACACrCACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 c 0 0 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 g 0 0 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 t 0 0 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30

dyads_m10_shift11 (dyads_m10)
; dyads_m9 versus dyads_m10; m=10/33; ncol2=18; w=0; offset=0; strand=D; shift=11; score=0.620754; -----------ACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 c 0 0 0 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 g 0 0 0 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 t 0 0 0 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201

dyads_m2_shift4 (dyads_m2)
; dyads_m9 versus dyads_m2; m=11/33; ncol2=20; w=-7; offset=-7; strand=D; shift=4; score=0.550978; ----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

positions_7nt_m9_shift0 (positions_7nt_m9)
; dyads_m9 versus positions_7nt_m9; m=12/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.477947; caCACACACACACACACACACaca ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; dyads_m9 versus positions_6nt_m4_rc; m=13/33; ncol2=23; w=-10; offset=-10; strand=R; shift=1; score=0.476706; -acACACACACACACACACACAca ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_6nt_m1_shift0 (positions_6nt_m1)
; dyads_m9 versus positions_6nt_m1; m=14/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score= 0.4758; caCACACACACACACACACACaca ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_7nt_m3_shift0 (positions_7nt_m3)
; dyads_m9 versus positions_7nt_m3; m=15/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.475621; cACACACACACACACACACACaca ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_7nt_m10_shift1 (positions_7nt_m10)
; dyads_m9 versus positions_7nt_m10; m=16/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.465071; -aCACACACACACACACACACACa ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_6nt_m9_shift2 (positions_6nt_m9)
; dyads_m9 versus positions_6nt_m9; m=17/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.463999; --cACACACACACACACACACACA ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831

positions_6nt_m10_shift9 (positions_6nt_m10)
; dyads_m9 versus positions_6nt_m10; m=18/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.463478; ---------aCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 c 0 0 0 0 0 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 g 0 0 0 0 0 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 t 0 0 0 0 0 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139

positions_6nt_m7_shift4 (positions_6nt_m7)
; dyads_m9 versus positions_6nt_m7; m=19/33; ncol2=24; w=-7; offset=-7; strand=D; shift=4; score=0.463207; ----cacamACACACACACACACA ; cor=; Ncor= a 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 c 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 g 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 t 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85

positions_6nt_m5_shift5 (positions_6nt_m5)
; dyads_m9 versus positions_6nt_m5; m=20/33; ncol2=24; w=-6; offset=-6; strand=D; shift=5; score=0.463116; -----acamACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 c 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 g 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 t 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115

positions_7nt_m7_shift3 (positions_7nt_m7)
; dyads_m9 versus positions_7nt_m7; m=21/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.462789; ---acaCACACACACACACACACA ; cor=; Ncor= a 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 c 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 g 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 t 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494

positions_7nt_m2_shift11 (positions_7nt_m2)
; dyads_m9 versus positions_7nt_m2; m=22/33; ncol2=24; w=0; offset=0; strand=D; shift=11; score=0.462744; -----------aCAcACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 c 0 0 0 0 0 0 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 g 0 0 0 0 0 0 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 t 0 0 0 0 0 0 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89

positions_7nt_m8_shift5 (positions_7nt_m8)
; dyads_m9 versus positions_7nt_m8; m=23/33; ncol2=24; w=-6; offset=-6; strand=D; shift=5; score=0.461864; -----acaCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 c 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 g 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 t 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280

positions_7nt_m4_shift7 (positions_7nt_m4)
; dyads_m9 versus positions_7nt_m4; m=24/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.461738; -------aCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 c 0 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 g 0 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 t 0 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198

positions_6nt_m8_shift6 (positions_6nt_m8)
; dyads_m9 versus positions_6nt_m8; m=25/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.460653; ------caCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 c 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 g 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 t 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212

dyads_m8_shift0 (dyads_m8)
; dyads_m9 versus dyads_m8; m=26/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.460028; cacACACACACACACACACACaca ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

dyads_m1_shift0 (dyads_m1)
; dyads_m9 versus dyads_m1; m=27/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.459694; caCaCACACACACACACACACaca ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_6nt_m6_shift1 (positions_6nt_m6)
; dyads_m9 versus positions_6nt_m6; m=28/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.45629; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142

positions_7nt_m6_shift8 (positions_7nt_m6)
; dyads_m9 versus positions_7nt_m6; m=29/33; ncol2=24; w=-3; offset=-3; strand=D; shift=8; score=0.455773; --------caCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 c 0 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 g 0 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 t 0 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468

positions_7nt_m5_shift11 (positions_7nt_m5)
; dyads_m9 versus positions_7nt_m5; m=30/33; ncol2=24; w=0; offset=0; strand=D; shift=11; score=0.455053; -----------acAcACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 c 0 0 0 0 0 0 0 0 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 g 0 0 0 0 0 0 0 0 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 t 0 0 0 0 0 0 0 0 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256

positions_6nt_m2_shift1 (positions_6nt_m2)
; dyads_m9 versus positions_6nt_m2; m=31/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.455014; -mmmmmmaCACACrCACACACaCa ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657

positions_6nt_m3_shift1 (positions_6nt_m3)
; dyads_m9 versus positions_6nt_m3; m=32/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.45217; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_7nt_m1_shift0 (positions_7nt_m1)
; dyads_m9 versus positions_7nt_m1; m=33/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.45174; cacACACACACACACACACACACa ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m6_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m6_shift0 (oligos_6nt_mkv4_m6)
; oligos_6nt_mkv4_m6; m=0 (reference); ncol1=12; shift=0; ncol=12; yyCTTATCagym ; Alignment reference a 258 185 81 30 34 1157 9 27 667 140 266 331 c 411 359 1020 64 33 44 19 1173 127 207 383 328 g 231 277 65 39 16 8 37 9 266 679 226 283 t 339 418 73 1106 1156 30 1174 30 179 213 364 297

oligos_6nt_mkv4_m6_shift0 (oligos_6nt_mkv4_m6)
; oligos_6nt_mkv4_m6 versus oligos_6nt_mkv4_m6; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; yyCTTATCagym ; cor=; Ncor= a 258 185 81 30 34 1157 9 27 667 140 266 331 c 411 359 1020 64 33 44 19 1173 127 207 383 328 g 231 277 65 39 16 8 37 9 266 679 226 283 t 339 418 73 1106 1156 30 1174 30 179 213 364 297

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m10_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m10_shift0 (oligos_7nt_mkv5_m10)
; oligos_7nt_mkv5_m10; m=0 (reference); ncol1=11; shift=0; ncol=11; rrCAGAGACrg ; Alignment reference a 510 713 119 1668 35 1626 74 1599 123 732 432 c 439 367 1422 60 33 93 37 80 1348 348 434 g 525 496 207 55 1666 59 1613 85 267 487 665 t 329 227 55 20 69 25 79 39 65 236 272

oligos_7nt_mkv5_m10_shift0 (oligos_7nt_mkv5_m10)
; oligos_7nt_mkv5_m10 versus oligos_7nt_mkv5_m10; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rrCAGAGACrg ; cor=; Ncor= a 510 713 119 1668 35 1626 74 1599 123 732 432 c 439 367 1422 60 33 93 37 80 1348 348 434 g 525 496 207 55 1666 59 1613 85 267 487 665 t 329 227 55 20 69 25 79 39 65 236 272

oligos_7nt_mkv5_m7_rc_shift1 (oligos_7nt_mkv5_m7_rc)
; oligos_7nt_mkv5_m10 versus oligos_7nt_mkv5_m7_rc; m=2/2; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.470951; -aGAGAGArAG ; cor=; Ncor= a 0 4174 1102 5431 368 5778 381 5780 2077 5753 383 c 0 719 524 332 147 286 76 293 156 244 136 g 0 960 4387 444 5779 243 5870 266 4049 301 5809 t 0 595 435 241 154 141 121 109 166 150 120

One-to-n matrix alignment; reference matrix: positions_6nt_m8_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_6nt_m8; m=0 (reference); ncol1=24; shift=1; ncol=25; -caCACACACACACACACACACACa ; Alignment reference a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_6nt_m8 versus positions_6nt_m8; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_6nt_m8 versus positions_7nt_m6; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.995013; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

dyads_m8_shift1 (dyads_m8)
; positions_6nt_m8 versus dyads_m8; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992279; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m8 versus positions_7nt_m1; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991844; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_6nt_m8 versus positions_7nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.990393; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

dyads_m1_shift1 (dyads_m1)
; positions_6nt_m8 versus dyads_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989754; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m8 versus positions_7nt_m3; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989604; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_6nt_m8 versus positions_6nt_m9; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988297; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m8 versus positions_6nt_m1; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986493; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_6nt_m8 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.981928; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; positions_6nt_m8 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.946198; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869

positions_7nt_m4_shift2 (positions_7nt_m4)
; positions_6nt_m8 versus positions_7nt_m4; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.919776; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m8 versus positions_6nt_m5; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.917413; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0

positions_7nt_m8_shift0 (positions_7nt_m8)
; positions_6nt_m8 versus positions_7nt_m8; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.916292; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0

positions_7nt_m10_shift2 (positions_7nt_m10)
; positions_6nt_m8 versus positions_7nt_m10; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914479; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_6nt_m8 versus positions_7nt_m2; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.911164; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0

positions_7nt_m7_shift2 (positions_7nt_m7)
; positions_6nt_m8 versus positions_7nt_m7; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910919; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102

positions_6nt_m10_shift2 (positions_6nt_m10)
; positions_6nt_m8 versus positions_6nt_m10; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910347; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m8 versus positions_7nt_m5; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909855; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0

positions_6nt_m3_shift2 (positions_6nt_m3)
; positions_6nt_m8 versus positions_6nt_m3; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909589; --acrCACACACACACACACACACa ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_6nt_m6_shift2 (positions_6nt_m6)
; positions_6nt_m8 versus positions_6nt_m6; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.901993; --acaCacACACACACACACACACa ; cor=; Ncor= a 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m8 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.857039; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0

dyads_m2_shift5 (dyads_m2)
; positions_6nt_m8 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score=0.803687; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816

dyads_m10_shift2 (dyads_m10)
; positions_6nt_m8 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=1; strand=D; shift=2; score=0.739074; --ACACACACACACACrCAC----- ; cor=; Ncor= a 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 0 c 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 0 g 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 0 t 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0 0

oligos_7nt_mkv5_m8_shift2 (oligos_7nt_mkv5_m8)
; positions_6nt_m8 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=1; strand=D; shift=2; score=0.657679; --ACACACACACACACAC------- ; cor=; Ncor= a 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 0 0 0 0 c 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 0 0 0 0 g 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 0 0 0 0 t 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0 0 0 0 0

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m8 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.611056; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

oligos_6nt_mkv4_m2_shift1 (oligos_6nt_mkv4_m2)
; positions_6nt_m8 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=0; strand=D; shift=1; score=0.597483; -caCwCACAyACACmca-------- ; cor=; Ncor= a 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 0 0 0 c 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 0 0 0 g 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 0 0 0 t 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0 0 0 0

oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; positions_6nt_m8 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.526451; ---caCACAcACACac--------- ; cor=; Ncor= a 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 c 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 g 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 t 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0

dyads_m3_shift6 (dyads_m3)
; positions_6nt_m8 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=5; strand=D; shift=6; score=0.525981; ------acAyACACACrCac----- ; cor=; Ncor= a 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 c 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 g 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 t 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0

dyads_m7_shift6 (dyads_m7)
; positions_6nt_m8 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=5; strand=D; shift=6; score=0.511823; ------acAyACACACAyac----- ; cor=; Ncor= a 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 0 c 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 0 g 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 0 t 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0 0

oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)
; positions_6nt_m8 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.507868; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

dyads_m9_shift6 (dyads_m9)
; positions_6nt_m8 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=5; strand=D; shift=6; score=0.460653; ------acATACACACmca------ ; cor=; Ncor= a 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 c 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 g 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 t 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0

oligos_7nt_mkv5_m9_shift5 (oligos_7nt_mkv5_m9)
; positions_6nt_m8 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=4; strand=D; shift=5; score=0.423786; -----caCAsACACAAam------- ; cor=; Ncor= a 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 0 c 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 0 g 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 0 t 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift0 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=24; shift=0; ncol=24; mmmmmmaCACACrCACACACaCac ; Alignment reference a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m2_shift0 (positions_6nt_m2)
; positions_6nt_m2 versus positions_6nt_m2; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m6_shift0 (positions_6nt_m6)
; positions_6nt_m2 versus positions_6nt_m6; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.959159; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m2 versus positions_6nt_m5; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.935678; acamACACACACACACACACACAC ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_7nt_m5_shift0 (positions_7nt_m5)
; positions_6nt_m2 versus positions_7nt_m5; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.92956; acAcACACACACACACACACACac ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_6nt_m10_shift0 (positions_6nt_m10)
; positions_6nt_m2 versus positions_6nt_m10; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.922918; aCACACACACACACACACACACac ; cor=; Ncor= a 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_7nt_m2_shift0 (positions_7nt_m2)
; positions_6nt_m2 versus positions_7nt_m2; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.918145; aCAcACACACACACACACACACAC ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m8_shift0 (positions_7nt_m8)
; positions_6nt_m2 versus positions_7nt_m8; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.916176; acaCACACACACACACACACACac ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m7_shift0 (positions_7nt_m7)
; positions_6nt_m2 versus positions_7nt_m7; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.914381; acaCACACACACACACACACACac ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_7nt_m10_shift0 (positions_7nt_m10)
; positions_6nt_m2 versus positions_7nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.913729; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m2 versus positions_6nt_m3; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.911068; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m4_shift0 (positions_7nt_m4)
; positions_6nt_m2 versus positions_7nt_m4; m=11/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.898709; aCACACACACACACACACACAcac ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m7_shift1 (positions_6nt_m7)
; positions_6nt_m2 versus positions_6nt_m7; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.878019; -cacamACACACACACACACACAC ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534

positions_6nt_m4_rc_shift0 (positions_6nt_m4_rc)
; positions_6nt_m2 versus positions_6nt_m4_rc; m=13/33; ncol2=23; w=0; offset=0; strand=R; shift=0; score=0.877849; acACACACACACACACACACAca- ; cor=; Ncor= a 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

dyads_m8_shift1 (dyads_m8)
; positions_6nt_m2 versus dyads_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.869946; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_7nt_m6_shift1 (positions_7nt_m6)
; positions_6nt_m2 versus positions_7nt_m6; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.868072; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590

positions_7nt_m9_shift1 (positions_7nt_m9)
; positions_6nt_m2 versus positions_7nt_m9; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.866985; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

dyads_m1_shift1 (dyads_m1)
; positions_6nt_m2 versus dyads_m1; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.864772; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_6nt_m1_shift1 (positions_6nt_m1)
; positions_6nt_m2 versus positions_6nt_m1; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.861073; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m2 versus positions_7nt_m1; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.859373; -cacACACACACACACACACACAC ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

positions_6nt_m8_shift1 (positions_6nt_m8)
; positions_6nt_m2 versus positions_6nt_m8; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.857039; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239

positions_7nt_m3_shift1 (positions_7nt_m3)
; positions_6nt_m2 versus positions_7nt_m3; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.846742; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m9_shift1 (positions_6nt_m9)
; positions_6nt_m2 versus positions_6nt_m9; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.844957; -cACACACACACACACACACACAc ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

dyads_m2_shift3 (dyads_m2)
; positions_6nt_m2 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=3; score=0.814072; ---camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0

dyads_m10_shift6 (dyads_m10)
; positions_6nt_m2 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=6; score=0.734848; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_7nt_mkv5_m8_shift6 (oligos_7nt_mkv5_m8)
; positions_6nt_m2 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=6; score=0.65205; ------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0

oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)
; positions_6nt_m2 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=7; strand=D; shift=7; score=0.591795; -------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0

oligos_6nt_mkv4_m5_rc_shift4 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m2 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=4; strand=R; shift=4; score=0.591549; ----acAsACACrCACAsac---- ; cor=; Ncor= a 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 c 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 g 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 t 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0

oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)
; positions_6nt_m2 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=11; strand=D; shift=11; score=0.519417; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

oligos_7nt_mkv5_m5_shift7 (oligos_7nt_mkv5_m5)
; positions_6nt_m2 versus oligos_7nt_mkv5_m5; m=29/33; ncol2=14; w=0; offset=7; strand=D; shift=7; score=0.512689; -------caCACGCACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 c 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 g 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 t 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0

dyads_m3_shift10 (dyads_m3)
; positions_6nt_m2 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=10; strand=D; shift=10; score=0.512071; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413

dyads_m7_shift10 (dyads_m7)
; positions_6nt_m2 versus dyads_m7; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=10; score=0.50279; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m9_shift10 (dyads_m9)
; positions_6nt_m2 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=10; strand=D; shift=10; score=0.455014; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; positions_6nt_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=11; score=0.425652; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m5_shift10 ; 33 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=14; shift=10; ncol=24; ----------caCACGCACACmca ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m5; m=1/32; ncol2=14; w=0; offset=0; strand=D; shift=10; score= 1; ----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501

oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m4; m=2/32; ncol2=13; w=0; offset=0; strand=D; shift=10; score=0.799822; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0

dyads_m9_shift11 (dyads_m9)
; oligos_7nt_mkv5_m5 versus dyads_m9; m=3/32; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.735088; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391

oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)
; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m8; m=4/32; ncol2=16; w=-1; offset=-1; strand=D; shift=9; score=0.731657; ---------ACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929

oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)
; oligos_7nt_mkv5_m5 versus oligos_6nt_mkv4_m2; m=5/32; ncol2=16; w=-2; offset=-2; strand=D; shift=8; score=0.719043; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421

oligos_6nt_mkv4_m5_rc_shift7 (oligos_6nt_mkv4_m5_rc)
; oligos_7nt_mkv5_m5 versus oligos_6nt_mkv4_m5_rc; m=6/32; ncol2=16; w=-3; offset=-3; strand=R; shift=7; score=0.694767; -------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0

dyads_m10_shift7 (dyads_m10)
; oligos_7nt_mkv5_m5 versus dyads_m10; m=7/32; ncol2=18; w=-3; offset=-3; strand=D; shift=7; score=0.658409; -------ACACACACACACACrCA ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902

dyads_m3_shift11 (dyads_m3)
; oligos_7nt_mkv5_m5 versus dyads_m3; m=8/32; ncol2=14; w=0; offset=1; strand=D; shift=11; score=0.650552; -----------acAyACACACrCa ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 c 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 g 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 t 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415

dyads_m7_shift11 (dyads_m7)
; oligos_7nt_mkv5_m5 versus dyads_m7; m=9/32; ncol2=14; w=0; offset=1; strand=D; shift=11; score=0.64277; -----------acAyACACACAya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401

dyads_m2_shift6 (dyads_m2)
; oligos_7nt_mkv5_m5 versus dyads_m2; m=10/32; ncol2=20; w=-4; offset=-4; strand=D; shift=6; score=0.612532; ------camACACACACACACACa ; cor=; Ncor= a 0 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 c 0 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 g 0 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 t 0 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308

positions_6nt_m4_rc_shift5 (positions_6nt_m4_rc)
; oligos_7nt_mkv5_m5 versus positions_6nt_m4_rc; m=11/32; ncol2=23; w=-5; offset=-5; strand=R; shift=5; score=0.525253; -----acACACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 c 0 0 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 g 0 0 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 t 0 0 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840

positions_6nt_m6_shift1 (positions_6nt_m6)
; oligos_7nt_mkv5_m5 versus positions_6nt_m6; m=12/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.517106; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142

positions_6nt_m2_shift3 (positions_6nt_m2)
; oligos_7nt_mkv5_m5 versus positions_6nt_m2; m=13/32; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.512689; ---mmmmmmaCACACrCACACACa ; cor=; Ncor= a 0 0 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 c 0 0 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 g 0 0 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 t 0 0 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890

positions_7nt_m4_shift1 (positions_7nt_m4)
; oligos_7nt_mkv5_m5 versus positions_7nt_m4; m=14/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.510035; -aCACACACACACACACACACAca ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138

positions_7nt_m6_shift0 (positions_7nt_m6)
; oligos_7nt_mkv5_m5 versus positions_7nt_m6; m=15/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.508167; caCACACACACACACACACACACa ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504

positions_6nt_m8_shift0 (positions_6nt_m8)
; oligos_7nt_mkv5_m5 versus positions_6nt_m8; m=16/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.507868; caCACACACACACACACACACACa ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160

positions_6nt_m10_shift3 (positions_6nt_m10)
; oligos_7nt_mkv5_m5 versus positions_6nt_m10; m=17/32; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.507545; ---aCACACACACACACACACACA ; cor=; Ncor= a 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 c 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 g 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 t 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930

positions_7nt_m5_shift3 (positions_7nt_m5)
; oligos_7nt_mkv5_m5 versus positions_7nt_m5; m=18/32; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.501474; ---acAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 c 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 g 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 t 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307

positions_7nt_m10_shift9 (positions_7nt_m10)
; oligos_7nt_mkv5_m5 versus positions_7nt_m10; m=19/32; ncol2=24; w=-1; offset=-1; strand=D; shift=9; score=0.500888; ---------aCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 c 0 0 0 0 0 0 0 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 g 0 0 0 0 0 0 0 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 t 0 0 0 0 0 0 0 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186

positions_7nt_m3_shift8 (positions_7nt_m3)
; oligos_7nt_mkv5_m5 versus positions_7nt_m3; m=20/32; ncol2=24; w=-2; offset=-2; strand=D; shift=8; score=0.500348; --------cACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 c 0 0 0 0 0 0 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 g 0 0 0 0 0 0 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 t 0 0 0 0 0 0 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214

positions_7nt_m2_shift5 (positions_7nt_m2)
; oligos_7nt_mkv5_m5 versus positions_7nt_m2; m=21/32; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.498496; -----aCAcACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 c 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 g 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 t 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147

positions_7nt_m9_shift0 (positions_7nt_m9)
; oligos_7nt_mkv5_m5 versus positions_7nt_m9; m=22/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.496792; caCACACACACACACACACACaca ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341

dyads_m1_shift0 (dyads_m1)
; oligos_7nt_mkv5_m5 versus dyads_m1; m=23/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.496459; caCaCACACACACACACACACaca ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761

dyads_m8_shift0 (dyads_m8)
; oligos_7nt_mkv5_m5 versus dyads_m8; m=24/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.496063; cacACACACACACACACACACaca ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765

positions_7nt_m1_shift6 (positions_7nt_m1)
; oligos_7nt_mkv5_m5 versus positions_7nt_m1; m=25/32; ncol2=24; w=-4; offset=-4; strand=D; shift=6; score=0.496011; ------cacACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 c 0 0 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 g 0 0 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 t 0 0 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178

positions_6nt_m9_shift0 (positions_6nt_m9)
; oligos_7nt_mkv5_m5 versus positions_6nt_m9; m=26/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.490452; cACACACACACACACACACACAca ; cor=; Ncor= a 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029

positions_6nt_m1_shift0 (positions_6nt_m1)
; oligos_7nt_mkv5_m5 versus positions_6nt_m1; m=27/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.490066; caCACACACACACACACACACaca ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111

positions_6nt_m3_shift1 (positions_6nt_m3)
; oligos_7nt_mkv5_m5 versus positions_6nt_m3; m=28/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.489578; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643

positions_6nt_m7_shift0 (positions_6nt_m7)
; oligos_7nt_mkv5_m5 versus positions_6nt_m7; m=29/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.486744; cacamACACACACACACACACACA ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446

positions_7nt_m8_shift1 (positions_7nt_m8)
; oligos_7nt_mkv5_m5 versus positions_7nt_m8; m=30/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.484463; -acaCACACACACACACACACACa ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016

positions_7nt_m7_shift5 (positions_7nt_m7)
; oligos_7nt_mkv5_m5 versus positions_7nt_m7; m=31/32; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.484231; -----acaCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 c 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 g 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 t 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539

positions_6nt_m5_shift1 (positions_6nt_m5)
; oligos_7nt_mkv5_m5 versus positions_6nt_m5; m=32/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.482867; -acamACACACACACACACACACA ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m7_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m7_shift0 (oligos_6nt_mkv4_m7)
; oligos_6nt_mkv4_m7; m=0 (reference); ncol1=10; shift=0; ncol=10; mmACTGCAcm ; Alignment reference a 280 224 857 0 0 11 0 847 189 254 c 248 345 0 857 0 7 838 3 344 244 g 195 114 0 0 0 838 12 0 175 170 t 134 174 0 0 857 1 7 7 149 189

oligos_6nt_mkv4_m7_shift0 (oligos_6nt_mkv4_m7)
; oligos_6nt_mkv4_m7 versus oligos_6nt_mkv4_m7; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; mmACTGCAcm ; cor=; Ncor= a 280 224 857 0 0 11 0 847 189 254 c 248 345 0 857 0 7 838 3 344 244 g 195 114 0 0 0 838 12 0 175 170 t 134 174 0 0 857 1 7 7 149 189

One-to-n matrix alignment; reference matrix: positions_6nt_m5_shift1 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_6nt_m5; m=0 (reference); ncol1=24; shift=1; ncol=25; -acamACACACACACACACACACAC ; Alignment reference a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_6nt_m5_shift1 (positions_6nt_m5)
; positions_6nt_m5 versus positions_6nt_m5; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782

positions_7nt_m8_shift1 (positions_7nt_m8)
; positions_6nt_m5 versus positions_7nt_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.99363; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309

positions_7nt_m5_shift1 (positions_7nt_m5)
; positions_6nt_m5 versus positions_7nt_m5; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988476; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011

positions_7nt_m2_shift1 (positions_7nt_m2)
; positions_6nt_m5 versus positions_7nt_m2; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.987944; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899

positions_7nt_m7_shift1 (positions_7nt_m7)
; positions_6nt_m5 versus positions_7nt_m7; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985185; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_6nt_m5 versus positions_6nt_m3; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984404; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m10_shift1 (positions_7nt_m10)
; positions_6nt_m5 versus positions_7nt_m10; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.979829; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m4_shift1 (positions_7nt_m4)
; positions_6nt_m5 versus positions_7nt_m4; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976935; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_6nt_m6_shift1 (positions_6nt_m6)
; positions_6nt_m5 versus positions_6nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976777; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_6nt_m10_shift1 (positions_6nt_m10)
; positions_6nt_m5 versus positions_6nt_m10; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976636; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468

positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)
; positions_6nt_m5 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.936184; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; positions_6nt_m5 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.935678; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m7_shift0 (positions_6nt_m7)
; positions_6nt_m5 versus positions_6nt_m7; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.918726; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0

positions_6nt_m8_shift2 (positions_6nt_m8)
; positions_6nt_m5 versus positions_6nt_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.917413; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239

dyads_m8_shift2 (dyads_m8)
; positions_6nt_m5 versus dyads_m8; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914144; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

positions_7nt_m6_shift2 (positions_7nt_m6)
; positions_6nt_m5 versus positions_7nt_m6; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911639; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590

positions_7nt_m1_shift2 (positions_7nt_m1)
; positions_6nt_m5 versus positions_7nt_m1; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910949; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

positions_7nt_m9_shift2 (positions_7nt_m9)
; positions_6nt_m5 versus positions_7nt_m9; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909187; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

dyads_m1_shift2 (dyads_m1)
; positions_6nt_m5 versus dyads_m1; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908686; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_7nt_m3_shift2 (positions_7nt_m3)
; positions_6nt_m5 versus positions_7nt_m3; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.907193; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m1_shift2 (positions_6nt_m1)
; positions_6nt_m5 versus positions_6nt_m1; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.905847; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_6nt_m9_shift2 (positions_6nt_m9)
; positions_6nt_m5 versus positions_6nt_m9; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.905066; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214

dyads_m2_shift2 (dyads_m2)
; positions_6nt_m5 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.803403; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0

dyads_m10_shift7 (dyads_m10)
; positions_6nt_m5 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=7; score=0.739193; -------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123

oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)
; positions_6nt_m5 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.657393; ---------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)
; positions_6nt_m5 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.614194; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

oligos_6nt_mkv4_m2_shift2 (oligos_6nt_mkv4_m2)
; positions_6nt_m5 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=1; strand=D; shift=2; score=0.596444; --caCwCACAyACACmca------- ; cor=; Ncor= a 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 0 0 c 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 0 0 g 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 0 0 t 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0 0 0

dyads_m3_shift7 (dyads_m3)
; positions_6nt_m5 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.528916; -------acAyACACACrCac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 c 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 g 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 t 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0

oligos_7nt_mkv5_m4_shift4 (oligos_7nt_mkv5_m4)
; positions_6nt_m5 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=3; strand=D; shift=4; score=0.526625; ----caCACAcACACac-------- ; cor=; Ncor= a 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 c 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 g 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 t 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0

dyads_m7_shift7 (dyads_m7)
; positions_6nt_m5 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.512022; -------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0

oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)
; positions_6nt_m5 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.482867; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0

dyads_m9_shift7 (dyads_m9)
; positions_6nt_m5 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=6; strand=D; shift=7; score=0.463116; -------acATACACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 c 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 g 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 t 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0

oligos_7nt_mkv5_m9_shift6 (oligos_7nt_mkv5_m9)
; positions_6nt_m5 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=5; strand=D; shift=6; score=0.424786; ------caCAsACACAAam------ ; cor=; Ncor= a 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 c 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 g 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 t 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m9_shift11 ; 34 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; oligos_7nt_mkv5_m9; m=0 (reference); ncol1=13; shift=11; ncol=24; -----------caCAsACACAAam ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)
; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m9; m=1/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score= 1; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m4; m=2/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score=0.779584; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279

dyads_m7_shift10 (dyads_m7)
; oligos_7nt_mkv5_m9 versus dyads_m7; m=3/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.702162; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421

dyads_m9_shift12 (dyads_m9)
; oligos_7nt_mkv5_m9 versus dyads_m9; m=4/33; ncol2=13; w=0; offset=1; strand=D; shift=12; score=0.66505; ------------acATACACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371

oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)
; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m8; m=5/33; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.66036; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224

oligos_7nt_mkv5_m1_shift13 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m1; m=6/33; ncol2=11; w=0; offset=2; strand=D; shift=13; score=0.64976; -------------maAACACAAmm ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 0 0 0 0 0 0 0 0 0 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 0 0 0 0 0 0 0 0 0 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 0 0 0 0 0 0 0 0 0 0 0 329 421 49 57 114 35 99 92 54 457 315

dyads_m3_shift12 (dyads_m3)
; oligos_7nt_mkv5_m9 versus dyads_m3; m=7/33; ncol2=14; w=0; offset=1; strand=D; shift=12; score=0.610056; ------------acAyACACACrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 c 0 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 g 0 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 t 0 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154

oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)
; oligos_7nt_mkv5_m9 versus oligos_6nt_mkv4_m5_rc; m=8/33; ncol2=16; w=-3; offset=-3; strand=R; shift=8; score=0.59826; --------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214

oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)
; oligos_7nt_mkv5_m9 versus oligos_6nt_mkv4_m2; m=9/33; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.576659; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362

dyads_m10_shift8 (dyads_m10)
; oligos_7nt_mkv5_m9 versus dyads_m10; m=10/33; ncol2=18; w=-3; offset=-3; strand=D; shift=8; score=0.563617; --------ACACACACACACACrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 c 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 g 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 t 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380

dyads_m2_shift5 (dyads_m2)
; oligos_7nt_mkv5_m9 versus dyads_m2; m=11/33; ncol2=20; w=-6; offset=-6; strand=D; shift=5; score=0.503447; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822

positions_6nt_m1_shift1 (positions_6nt_m1)
; oligos_7nt_mkv5_m9 versus positions_6nt_m1; m=12/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.443916; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; oligos_7nt_mkv5_m9 versus positions_6nt_m4_rc; m=13/33; ncol2=23; w=-9; offset=-9; strand=R; shift=2; score=0.442567; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940

positions_6nt_m3_shift0 (positions_6nt_m3)
; oligos_7nt_mkv5_m9 versus positions_6nt_m3; m=14/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.437995; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763

positions_7nt_m4_shift0 (positions_7nt_m4)
; oligos_7nt_mkv5_m9 versus positions_7nt_m4; m=15/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.430514; aCACACACACACACACACACAcac ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282

positions_7nt_m9_shift1 (positions_7nt_m9)
; oligos_7nt_mkv5_m9 versus positions_7nt_m9; m=16/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.430438; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371

positions_6nt_m9_shift9 (positions_6nt_m9)
; oligos_7nt_mkv5_m9 versus positions_6nt_m9; m=17/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.430132; ---------cACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 c 0 0 0 0 0 0 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 g 0 0 0 0 0 0 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 t 0 0 0 0 0 0 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382

positions_7nt_m10_shift0 (positions_7nt_m10)
; oligos_7nt_mkv5_m9 versus positions_7nt_m10; m=18/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.430118; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340

positions_7nt_m3_shift1 (positions_7nt_m3)
; oligos_7nt_mkv5_m9 versus positions_7nt_m3; m=19/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.428794; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267

positions_6nt_m10_shift2 (positions_6nt_m10)
; oligos_7nt_mkv5_m9 versus positions_6nt_m10; m=20/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.427078; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246

positions_7nt_m1_shift3 (positions_7nt_m1)
; oligos_7nt_mkv5_m9 versus positions_7nt_m1; m=21/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.425983; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 c 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 g 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 t 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570

positions_6nt_m2_shift0 (positions_6nt_m2)
; oligos_7nt_mkv5_m9 versus positions_6nt_m2; m=22/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.425652; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

positions_6nt_m5_shift6 (positions_6nt_m5)
; oligos_7nt_mkv5_m9 versus positions_6nt_m5; m=23/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.424786; ------acamACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 c 0 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 g 0 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 t 0 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249

positions_7nt_m7_shift10 (positions_7nt_m7)
; oligos_7nt_mkv5_m9 versus positions_7nt_m7; m=24/33; ncol2=24; w=-1; offset=-1; strand=D; shift=10; score=0.424122; ----------acaCACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 c 0 0 0 0 0 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 g 0 0 0 0 0 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 t 0 0 0 0 0 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355

positions_6nt_m7_shift5 (positions_6nt_m7)
; oligos_7nt_mkv5_m9 versus positions_6nt_m7; m=25/33; ncol2=24; w=-6; offset=-6; strand=D; shift=5; score=0.424075; -----cacamACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 c 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 g 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 t 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165

positions_7nt_m8_shift6 (positions_7nt_m8)
; oligos_7nt_mkv5_m9 versus positions_7nt_m8; m=26/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.423804; ------acaCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 c 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 g 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 t 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509

positions_6nt_m8_shift7 (positions_6nt_m8)
; oligos_7nt_mkv5_m9 versus positions_6nt_m8; m=27/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.423786; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 c 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 g 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 t 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495

dyads_m8_shift1 (dyads_m8)
; oligos_7nt_mkv5_m9 versus dyads_m8; m=28/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.422022; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875

dyads_m1_shift1 (dyads_m1)
; oligos_7nt_mkv5_m9 versus dyads_m1; m=29/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.421586; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900

positions_7nt_m5_shift2 (positions_7nt_m5)
; oligos_7nt_mkv5_m9 versus positions_7nt_m5; m=30/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.421334; --acAcACACACACACACACACAC ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599

positions_6nt_m6_shift0 (positions_6nt_m6)
; oligos_7nt_mkv5_m9 versus positions_6nt_m6; m=31/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.418999; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244

positions_7nt_m6_shift9 (positions_7nt_m6)
; oligos_7nt_mkv5_m9 versus positions_7nt_m6; m=32/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.418788; ---------caCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 c 0 0 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 g 0 0 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 t 0 0 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569

positions_7nt_m2_shift4 (positions_7nt_m2)
; oligos_7nt_mkv5_m9 versus positions_7nt_m2; m=33/33; ncol2=24; w=-7; offset=-7; strand=D; shift=4; score=0.417907; ----aCAcACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 c 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 g 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 t 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m2_shift4 (dyads_m2)				; dyads_m2; m=0 (reference); ncol1=20; shift=4; ncol=24; ----camACACACACACACACaca ; Alignment reference a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816
dyads_m2_shift4 (dyads_m2)				; dyads_m2 versus dyads_m2; m=1/33; ncol2=20; w=0; offset=0; strand=D; shift=4; score= 1; ----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816
dyads_m10_shift5 (dyads_m10)				; dyads_m2 versus dyads_m10; m=2/33; ncol2=18; w=0; offset=1; strand=D; shift=5; score=0.878168; -----ACACACACACACACrCAC- ; cor=; Ncor= a 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 c 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 g 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 t 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0
positions_6nt_m4_rc_shift3 (positions_6nt_m4_rc)				; dyads_m2 versus positions_6nt_m4_rc; m=3/33; ncol2=23; w=-1; offset=-1; strand=R; shift=3; score=0.857624; ---acACACACACACACACACACA ; cor=; Ncor= a 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 c 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 g 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 t 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481
positions_7nt_m9_shift0 (positions_7nt_m9)				; dyads_m2 versus positions_7nt_m9; m=4/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score= 0.819; caCACACACACACACACACACaca ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341
positions_6nt_m6_shift1 (positions_6nt_m6)				; dyads_m2 versus positions_6nt_m6; m=5/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.81798; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142
positions_6nt_m10_shift1 (positions_6nt_m10)				; dyads_m2 versus positions_6nt_m10; m=6/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.817805; -aCACACACACACACACACACACa ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221
positions_7nt_m1_shift4 (positions_7nt_m1)				; dyads_m2 versus positions_7nt_m1; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=4; score=0.816251; ----cacACACACACACACACACA ; cor=; Ncor= a 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 c 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 g 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 t 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236
positions_7nt_m6_shift0 (positions_7nt_m6)				; dyads_m2 versus positions_7nt_m6; m=8/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.815559; caCACACACACACACACACACACa ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504
positions_6nt_m1_shift0 (positions_6nt_m1)				; dyads_m2 versus positions_6nt_m1; m=9/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score= 0.8146; caCACACACACACACACACACaca ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111
positions_6nt_m2_shift1 (positions_6nt_m2)				; dyads_m2 versus positions_6nt_m2; m=10/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.814072; -mmmmmmaCACACrCACACACaCa ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657
dyads_m8_shift2 (dyads_m8)				; dyads_m2 versus dyads_m8; m=11/33; ncol2=24; w=-2; offset=-2; strand=D; shift=2; score=0.813645; --cacACACACACACACACACACa ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252
dyads_m1_shift2 (dyads_m1)				; dyads_m2 versus dyads_m1; m=12/33; ncol2=24; w=-2; offset=-2; strand=D; shift=2; score=0.812587; --caCaCACACACACACACACACa ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262
positions_7nt_m5_shift3 (positions_7nt_m5)				; dyads_m2 versus positions_7nt_m5; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.811137; ---acAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 c 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 g 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 t 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307
positions_7nt_m7_shift3 (positions_7nt_m7)				; dyads_m2 versus positions_7nt_m7; m=14/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.810574; ---acaCACACACACACACACACA ; cor=; Ncor= a 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 c 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 g 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 t 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494
positions_6nt_m9_shift0 (positions_6nt_m9)				; dyads_m2 versus positions_6nt_m9; m=15/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.807867; cACACACACACACACACACACAca ; cor=; Ncor= a 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029
positions_7nt_m2_shift3 (positions_7nt_m2)				; dyads_m2 versus positions_7nt_m2; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.806882; ---aCAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 c 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 g 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 t 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190
positions_7nt_m3_shift0 (positions_7nt_m3)				; dyads_m2 versus positions_7nt_m3; m=17/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.806466; cACACACACACACACACACACaca ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213
positions_7nt_m10_shift1 (positions_7nt_m10)				; dyads_m2 versus positions_7nt_m10; m=18/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.805419; -aCACACACACACACACACACACa ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101
positions_6nt_m7_shift0 (positions_6nt_m7)				; dyads_m2 versus positions_6nt_m7; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.803906; cacamACACACACACACACACACA ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446
positions_6nt_m8_shift0 (positions_6nt_m8)				; dyads_m2 versus positions_6nt_m8; m=20/33; ncol2=24; w=-4; offset=-4; strand=D; shift=0; score=0.803687; caCACACACACACACACACACACa ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160
positions_6nt_m5_shift3 (positions_6nt_m5)				; dyads_m2 versus positions_6nt_m5; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.803403; ---acamACACACACACACACACA ; cor=; Ncor= a 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 c 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 g 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 t 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169
positions_7nt_m4_shift1 (positions_7nt_m4)				; dyads_m2 versus positions_7nt_m4; m=22/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.80249; -aCACACACACACACACACACAca ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138
positions_7nt_m8_shift3 (positions_7nt_m8)				; dyads_m2 versus positions_7nt_m8; m=23/33; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.801902; ---acaCACACACACACACACACA ; cor=; Ncor= a 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 c 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 g 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 t 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385
positions_6nt_m3_shift1 (positions_6nt_m3)				; dyads_m2 versus positions_6nt_m3; m=24/33; ncol2=24; w=-3; offset=-3; strand=D; shift=1; score=0.801821; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643
oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)				; dyads_m2 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=3; strand=D; shift=7; score=0.784343; -------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0
oligos_6nt_mkv4_m5_rc_shift5 (oligos_6nt_mkv4_m5_rc)				; dyads_m2 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=1; strand=R; shift=5; score=0.731421; -----acAsACACrCACAsac--- ; cor=; Ncor= a 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 c 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 g 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 t 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; dyads_m2 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=4; strand=D; shift=8; score=0.71013; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)				; dyads_m2 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=6; strand=D; shift=10; score=0.621585; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0
oligos_7nt_mkv5_m5_shift8 (oligos_7nt_mkv5_m5)				; dyads_m2 versus oligos_7nt_mkv5_m5; m=29/33; ncol2=14; w=0; offset=4; strand=D; shift=8; score=0.612532; --------caCACGCACACmca-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 c 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 g 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 t 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0
dyads_m3_shift9 (dyads_m3)				; dyads_m2 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=5; strand=D; shift=9; score=0.602203; ---------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0
dyads_m7_shift9 (dyads_m7)				; dyads_m2 versus dyads_m7; m=31/33; ncol2=14; w=0; offset=5; strand=D; shift=9; score=0.602065; ---------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0
dyads_m9_shift11 (dyads_m9)				; dyads_m2 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=7; strand=D; shift=11; score=0.550978; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)				; dyads_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=6; strand=D; shift=10; score=0.503447; ----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)				; oligos_7nt_mkv5_m8; m=0 (reference); ncol1=16; shift=8; ncol=24; --------ACACACACACACACAC ; Alignment reference a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)				; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m8; m=1/33; ncol2=16; w=0; offset=0; strand=D; shift=8; score= 1; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)				; oligos_7nt_mkv5_m8 versus oligos_6nt_mkv4_m5_rc; m=2/33; ncol2=16; w=0; offset=0; strand=R; shift=8; score=0.912141; --------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214
dyads_m10_shift6 (dyads_m10)				; oligos_7nt_mkv5_m8 versus dyads_m10; m=3/33; ncol2=18; w=-2; offset=-2; strand=D; shift=6; score=0.872418; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)				; oligos_7nt_mkv5_m8 versus oligos_6nt_mkv4_m2; m=4/33; ncol2=16; w=-1; offset=-1; strand=D; shift=7; score=0.807829; -------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0
oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m4; m=5/33; ncol2=13; w=0; offset=1; strand=D; shift=9; score=0.793847; ---------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0
dyads_m2_shift5 (dyads_m2)				; oligos_7nt_mkv5_m8 versus dyads_m2; m=6/33; ncol2=20; w=-3; offset=-3; strand=D; shift=5; score=0.784343; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822
dyads_m7_shift10 (dyads_m7)				; oligos_7nt_mkv5_m8 versus dyads_m7; m=7/33; ncol2=14; w=0; offset=2; strand=D; shift=10; score=0.771124; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m3_shift8 (dyads_m3)				; oligos_7nt_mkv5_m8 versus dyads_m3; m=8/33; ncol2=14; w=0; offset=0; strand=D; shift=8; score=0.755625; --------acAyACACACrCac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 c 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 g 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 t 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0
oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m5; m=9/33; ncol2=14; w=0; offset=1; strand=D; shift=9; score=0.731657; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0
positions_6nt_m4_rc_shift4 (positions_6nt_m4_rc)				; oligos_7nt_mkv5_m8 versus positions_6nt_m4_rc; m=10/33; ncol2=23; w=-4; offset=-4; strand=R; shift=4; score=0.68675; ----acACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 c 0 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 g 0 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 t 0 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344
dyads_m9_shift10 (dyads_m9)				; oligos_7nt_mkv5_m8 versus dyads_m9; m=11/33; ncol2=13; w=0; offset=2; strand=D; shift=10; score=0.676143; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0
positions_6nt_m3_shift0 (positions_6nt_m3)				; oligos_7nt_mkv5_m8 versus positions_6nt_m3; m=12/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.664025; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m3_shift1 (positions_7nt_m3)				; oligos_7nt_mkv5_m8 versus positions_7nt_m3; m=13/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.662911; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_6nt_m1_shift1 (positions_6nt_m1)				; oligos_7nt_mkv5_m8 versus positions_6nt_m1; m=14/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.662497; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
positions_7nt_m9_shift1 (positions_7nt_m9)				; oligos_7nt_mkv5_m8 versus positions_7nt_m9; m=15/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.662263; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
positions_7nt_m10_shift2 (positions_7nt_m10)				; oligos_7nt_mkv5_m8 versus positions_7nt_m10; m=16/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.661394; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137
positions_6nt_m9_shift3 (positions_6nt_m9)				; oligos_7nt_mkv5_m8 versus positions_6nt_m9; m=17/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.660589; ---cACACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 c 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 g 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 t 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; oligos_7nt_mkv5_m8 versus oligos_7nt_mkv5_m9; m=18/33; ncol2=13; w=0; offset=3; strand=D; shift=11; score=0.66036; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270
positions_7nt_m7_shift4 (positions_7nt_m7)				; oligos_7nt_mkv5_m8 versus positions_7nt_m7; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=4; score=0.660002; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 c 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 g 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 t 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600
positions_7nt_m8_shift6 (positions_7nt_m8)				; oligos_7nt_mkv5_m8 versus positions_7nt_m8; m=20/33; ncol2=24; w=-2; offset=-2; strand=D; shift=6; score=0.659471; ------acaCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 c 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 g 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 t 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509
dyads_m8_shift3 (dyads_m8)				; oligos_7nt_mkv5_m8 versus dyads_m8; m=21/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.659078; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 c 0 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 g 0 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 t 0 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018
dyads_m1_shift1 (dyads_m1)				; oligos_7nt_mkv5_m8 versus dyads_m1; m=22/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.658892; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_6nt_m10_shift2 (positions_6nt_m10)				; oligos_7nt_mkv5_m8 versus positions_6nt_m10; m=23/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.658883; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246
positions_7nt_m4_shift8 (positions_7nt_m4)				; oligos_7nt_mkv5_m8 versus positions_7nt_m4; m=24/33; ncol2=24; w=0; offset=0; strand=D; shift=8; score=0.658708; --------aCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 c 0 0 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 g 0 0 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 t 0 0 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459
positions_6nt_m8_shift7 (positions_6nt_m8)				; oligos_7nt_mkv5_m8 versus positions_6nt_m8; m=25/33; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.657679; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 c 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 g 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 t 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495
positions_6nt_m5_shift0 (positions_6nt_m5)				; oligos_7nt_mkv5_m8 versus positions_6nt_m5; m=26/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.657393; acamACACACACACACACACACAC ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_7nt_m6_shift1 (positions_7nt_m6)				; oligos_7nt_mkv5_m8 versus positions_7nt_m6; m=27/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.657339; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590
positions_6nt_m6_shift2 (positions_6nt_m6)				; oligos_7nt_mkv5_m8 versus positions_6nt_m6; m=28/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.657234; --acaCacACACACACACACACAC ; cor=; Ncor= a 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 c 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 g 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 t 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820
positions_7nt_m5_shift2 (positions_7nt_m5)				; oligos_7nt_mkv5_m8 versus positions_7nt_m5; m=29/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.656823; --acAcACACACACACACACACAC ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599
positions_7nt_m1_shift3 (positions_7nt_m1)				; oligos_7nt_mkv5_m8 versus positions_7nt_m1; m=30/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.656518; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 c 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 g 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 t 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570
positions_6nt_m7_shift5 (positions_6nt_m7)				; oligos_7nt_mkv5_m8 versus positions_6nt_m7; m=31/33; ncol2=24; w=-3; offset=-3; strand=D; shift=5; score=0.655536; -----cacamACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 c 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 g 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 t 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165
positions_7nt_m2_shift0 (positions_7nt_m2)				; oligos_7nt_mkv5_m8 versus positions_7nt_m2; m=32/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.655269; aCAcACACACACACACACACACAC ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_6nt_m2_shift2 (positions_6nt_m2)				; oligos_7nt_mkv5_m8 versus positions_6nt_m2; m=33/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.65205; --mmmmmmaCACACrCACACACaC ; cor=; Ncor= a 0 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 c 0 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 g 0 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 t 0 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m10_shift6 (dyads_m10)				; dyads_m10; m=0 (reference); ncol1=18; shift=6; ncol=24; ------ACACACACACACACrCAC ; Alignment reference a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
dyads_m10_shift6 (dyads_m10)				; dyads_m10 versus dyads_m10; m=1/33; ncol2=18; w=0; offset=0; strand=D; shift=6; score= 1; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
dyads_m2_shift5 (dyads_m2)				; dyads_m10 versus dyads_m2; m=2/33; ncol2=20; w=-1; offset=-1; strand=D; shift=5; score=0.878168; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)				; dyads_m10 versus oligos_7nt_mkv5_m8; m=3/33; ncol2=16; w=0; offset=2; strand=D; shift=8; score=0.872418; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_6nt_mkv4_m5_rc_shift6 (oligos_6nt_mkv4_m5_rc)				; dyads_m10 versus oligos_6nt_mkv4_m5_rc; m=4/33; ncol2=16; w=0; offset=0; strand=R; shift=6; score=0.802024; ------acAsACACrCACAsac-- ; cor=; Ncor= a 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 c 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 g 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 t 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0
oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)				; dyads_m10 versus oligos_6nt_mkv4_m2; m=5/33; ncol2=16; w=0; offset=1; strand=D; shift=7; score=0.79183; -------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; dyads_m10 versus positions_6nt_m4_rc; m=6/33; ncol2=23; w=-4; offset=-4; strand=R; shift=2; score=0.772107; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940
dyads_m8_shift3 (dyads_m8)				; dyads_m10 versus dyads_m8; m=7/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.740888; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 c 0 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 g 0 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 t 0 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018
positions_7nt_m7_shift2 (positions_7nt_m7)				; dyads_m10 versus positions_7nt_m7; m=8/33; ncol2=24; w=-4; offset=-4; strand=D; shift=2; score=0.740588; --acaCACACACACACACACACAC ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651
dyads_m1_shift3 (dyads_m1)				; dyads_m10 versus dyads_m1; m=9/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.740027; ---caCaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 c 0 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 g 0 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 t 0 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017
positions_7nt_m8_shift4 (positions_7nt_m8)				; dyads_m10 versus positions_7nt_m8; m=10/33; ncol2=24; w=-2; offset=-2; strand=D; shift=4; score=0.739934; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 c 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 g 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 t 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471
positions_7nt_m9_shift1 (positions_7nt_m9)				; dyads_m10 versus positions_7nt_m9; m=11/33; ncol2=24; w=-5; offset=-5; strand=D; shift=1; score=0.739874; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
positions_7nt_m4_shift6 (positions_7nt_m4)				; dyads_m10 versus positions_7nt_m4; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=6; score=0.739613; ------aCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 c 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 g 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 t 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450
positions_7nt_m6_shift1 (positions_7nt_m6)				; dyads_m10 versus positions_7nt_m6; m=13/33; ncol2=24; w=-5; offset=-5; strand=D; shift=1; score=0.739306; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590
positions_6nt_m10_shift4 (positions_6nt_m10)				; dyads_m10 versus positions_6nt_m10; m=14/33; ncol2=24; w=-2; offset=-2; strand=D; shift=4; score=0.739254; ----aCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 c 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 g 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 t 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127
positions_6nt_m5_shift0 (positions_6nt_m5)				; dyads_m10 versus positions_6nt_m5; m=15/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.739193; acamACACACACACACACACACAC ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_6nt_m8_shift5 (positions_6nt_m8)				; dyads_m10 versus positions_6nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=5; score=0.739074; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 c 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 g 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 t 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475
positions_6nt_m6_shift0 (positions_6nt_m6)				; dyads_m10 versus positions_6nt_m6; m=17/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.738978; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m9_shift3 (positions_6nt_m9)				; dyads_m10 versus positions_6nt_m9; m=18/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.738974; ---cACACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 c 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 g 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 t 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037
positions_6nt_m1_shift3 (positions_6nt_m1)				; dyads_m10 versus positions_6nt_m1; m=19/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.737685; ---caCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 c 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 g 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 t 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006
positions_7nt_m5_shift4 (positions_7nt_m5)				; dyads_m10 versus positions_7nt_m5; m=20/33; ncol2=24; w=-2; offset=-2; strand=D; shift=4; score=0.736751; ----acAcACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 c 0 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 g 0 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 t 0 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563
positions_7nt_m2_shift6 (positions_7nt_m2)				; dyads_m10 versus positions_7nt_m2; m=21/33; ncol2=24; w=0; offset=0; strand=D; shift=6; score=0.736552; ------aCAcACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 c 0 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 g 0 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 t 0 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345
positions_6nt_m7_shift3 (positions_6nt_m7)				; dyads_m10 versus positions_6nt_m7; m=22/33; ncol2=24; w=-3; offset=-3; strand=D; shift=3; score=0.736462; ---cacamACACACACACACACAC ; cor=; Ncor= a 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 c 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 g 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 t 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153
positions_7nt_m10_shift0 (positions_7nt_m10)				; dyads_m10 versus positions_7nt_m10; m=23/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.736358; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_6nt_m3_shift0 (positions_6nt_m3)				; dyads_m10 versus positions_6nt_m3; m=24/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.735604; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m3_shift1 (positions_7nt_m3)				; dyads_m10 versus positions_7nt_m3; m=25/33; ncol2=24; w=-5; offset=-5; strand=D; shift=1; score=0.735296; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_7nt_m1_shift5 (positions_7nt_m1)				; dyads_m10 versus positions_7nt_m1; m=26/33; ncol2=24; w=-1; offset=-1; strand=D; shift=5; score=0.73515; -----cacACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 c 0 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 g 0 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 t 0 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546
positions_6nt_m2_shift0 (positions_6nt_m2)				; dyads_m10 versus positions_6nt_m2; m=27/33; ncol2=24; w=-6; offset=-6; strand=D; shift=0; score=0.734848; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
dyads_m3_shift10 (dyads_m3)				; dyads_m10 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=4; strand=D; shift=10; score=0.70574; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
oligos_7nt_mkv5_m4_shift9 (oligos_7nt_mkv5_m4)				; dyads_m10 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=3; strand=D; shift=9; score=0.701278; ---------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0
dyads_m7_shift6 (dyads_m7)				; dyads_m10 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=0; strand=D; shift=6; score=0.69727; ------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0
oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)				; dyads_m10 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=3; strand=D; shift=9; score=0.658409; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0
dyads_m9_shift6 (dyads_m9)				; dyads_m10 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=0; strand=D; shift=6; score=0.620754; ------acATACACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 c 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 g 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 t 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0
oligos_7nt_mkv5_m9_shift9 (oligos_7nt_mkv5_m9)				; dyads_m10 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=3; strand=D; shift=9; score=0.563617; ---------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)				; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; cycCCACAAmm ; Alignment reference a 354 335 306 0 2 1250 50 1267 1364 427 379 c 516 530 804 1437 1382 94 1304 72 17 444 541 g 254 207 179 0 16 42 44 36 33 264 277 t 320 372 155 7 44 58 46 69 30 309 247
oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1)				; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; cycCCACAAmm ; cor=; Ncor= a 354 335 306 0 2 1250 50 1267 1364 427 379 c 516 530 804 1437 1382 94 1304 72 17 444 541 g 254 207 179 0 16 42 44 36 33 264 277 t 320 372 155 7 44 58 46 69 30 309 247
oligos_6nt_mkv4_m9_shift0 (oligos_6nt_mkv4_m9)				; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m9; m=2/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.771457; mycCCACAGcv ; cor=; Ncor= a 351 293 194 0 22 1229 47 1193 25 335 370 c 446 514 929 1366 1252 59 1259 95 36 476 370 g 285 244 167 14 74 64 49 67 1298 267 380 t 320 351 112 22 54 50 47 47 43 324 282
dyads_m6_shift0 (dyads_m6)				; oligos_6nt_mkv4_m1 versus dyads_m6; m=3/3; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.706608; ccACCACCAcc ; cor=; Ncor= a 849 627 3918 50 30 4141 38 14 3899 676 705 c 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 g 690 543 129 102 115 126 110 85 188 692 474 t 681 894 234 208 231 102 266 247 146 935 795

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m7_shift1 (positions_6nt_m7)				; positions_6nt_m7; m=0 (reference); ncol1=24; shift=1; ncol=25; -cacamACACACACACACACACACA ; Alignment reference a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446
positions_6nt_m7_shift1 (positions_6nt_m7)				; positions_6nt_m7 versus positions_6nt_m7; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446
positions_7nt_m6_shift1 (positions_7nt_m6)				; positions_6nt_m7 versus positions_7nt_m6; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985444; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504
positions_6nt_m8_shift1 (positions_6nt_m8)				; positions_6nt_m7 versus positions_6nt_m8; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.981928; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160
dyads_m8_shift1 (dyads_m8)				; positions_6nt_m7 versus dyads_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980411; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
positions_7nt_m9_shift1 (positions_7nt_m9)				; positions_6nt_m7 versus positions_7nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98038; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_6nt_m7 versus positions_7nt_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980244; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892
dyads_m1_shift1 (dyads_m1)				; positions_6nt_m7 versus dyads_m1; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977538; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_6nt_m7 versus positions_6nt_m1; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.972641; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111
positions_7nt_m3_shift1 (positions_7nt_m3)				; positions_6nt_m7 versus positions_7nt_m3; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.970045; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213
positions_6nt_m9_shift1 (positions_6nt_m9)				; positions_6nt_m7 versus positions_6nt_m9; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.968749; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; positions_6nt_m7 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.937824; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869
positions_6nt_m5_shift2 (positions_6nt_m5)				; positions_6nt_m7 versus positions_6nt_m5; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.918726; --acamACACACACACACACACACA ; cor=; Ncor= a 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 c 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 g 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 t 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585
positions_7nt_m8_shift2 (positions_7nt_m8)				; positions_6nt_m7 versus positions_7nt_m8; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913239; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 c 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 g 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 t 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016
positions_7nt_m5_shift2 (positions_7nt_m5)				; positions_6nt_m7 versus positions_7nt_m5; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909422; --acAcACACACACACACACACACa ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789
positions_7nt_m2_shift2 (positions_7nt_m2)				; positions_6nt_m7 versus positions_7nt_m2; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.907567; --aCAcACACACACACACACACACA ; cor=; Ncor= a 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 c 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 g 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 t 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703
positions_6nt_m3_shift2 (positions_6nt_m3)				; positions_6nt_m7 versus positions_6nt_m3; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.906781; --acrCACACACACACACACACACa ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643
positions_7nt_m7_shift2 (positions_7nt_m7)				; positions_6nt_m7 versus positions_7nt_m7; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.905653; --acaCACACACACACACACACACa ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102
positions_7nt_m10_shift2 (positions_7nt_m10)				; positions_6nt_m7 versus positions_7nt_m10; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90316; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101
positions_7nt_m4_shift2 (positions_7nt_m4)				; positions_6nt_m7 versus positions_7nt_m4; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.901113; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138
positions_6nt_m6_shift0 (positions_6nt_m6)				; positions_6nt_m7 versus positions_6nt_m6; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.900059; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0
positions_6nt_m10_shift2 (positions_6nt_m10)				; positions_6nt_m7 versus positions_6nt_m10; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.899983; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m7 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.878019; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0
dyads_m2_shift5 (dyads_m2)				; positions_6nt_m7 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=4; strand=D; shift=5; score=0.803906; -----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816
dyads_m10_shift4 (dyads_m10)				; positions_6nt_m7 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.736462; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0
oligos_7nt_mkv5_m8_shift4 (oligos_7nt_mkv5_m8)				; positions_6nt_m7 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=3; strand=D; shift=4; score=0.655536; ----ACACACACACACACAC----- ; cor=; Ncor= a 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 0 0 c 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 0 0 g 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 0 0 t 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0 0 0
oligos_6nt_mkv4_m2_shift3 (oligos_6nt_mkv4_m2)				; positions_6nt_m7 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=2; strand=D; shift=3; score=0.596497; ---caCwCACAyACACmca------ ; cor=; Ncor= a 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 0 c 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 0 g 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 0 t 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0 0
oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)				; positions_6nt_m7 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.594245; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0
dyads_m3_shift8 (dyads_m3)				; positions_6nt_m7 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.528643; --------acAyACACACrCac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 c 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 g 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 t 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0
oligos_7nt_mkv5_m4_shift5 (oligos_7nt_mkv5_m4)				; positions_6nt_m7 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=4; strand=D; shift=5; score=0.52645; -----caCACAcACACac------- ; cor=; Ncor= a 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 c 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 g 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 t 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0
dyads_m7_shift8 (dyads_m7)				; positions_6nt_m7 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.512076; --------acAyACACACAyac--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 c 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 g 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 t 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0
oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)				; positions_6nt_m7 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.486744; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
dyads_m9_shift8 (dyads_m9)				; positions_6nt_m7 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=7; strand=D; shift=8; score=0.463207; --------acATACACACmca---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 c 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 g 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 t 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0
oligos_7nt_mkv5_m9_shift7 (oligos_7nt_mkv5_m9)				; positions_6nt_m7 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=6; strand=D; shift=7; score=0.424075; -------caCAsACACAAam----- ; cor=; Ncor= a 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 c 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 g 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 t 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=16; shift=8; ncol=24; --------caCwCACAyACACmca ; Alignment reference a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m2; m=1/33; ncol2=16; w=0; offset=0; strand=D; shift=8; score= 1; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)				; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m8; m=2/33; ncol2=16; w=0; offset=1; strand=D; shift=9; score=0.807829; ---------ACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929
dyads_m10_shift7 (dyads_m10)				; oligos_6nt_mkv4_m2 versus dyads_m10; m=3/33; ncol2=18; w=-1; offset=-1; strand=D; shift=7; score=0.79183; -------ACACACACACACACrCA ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902
oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)				; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m4; m=4/33; ncol2=13; w=0; offset=2; strand=D; shift=10; score=0.758749; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)				; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m5; m=5/33; ncol2=14; w=0; offset=2; strand=D; shift=10; score=0.719043; ----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
dyads_m2_shift4 (dyads_m2)				; oligos_6nt_mkv4_m2 versus dyads_m2; m=6/33; ncol2=20; w=-4; offset=-4; strand=D; shift=4; score=0.71013; ----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816
oligos_6nt_mkv4_m5_rc_shift7 (oligos_6nt_mkv4_m5_rc)				; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m5_rc; m=7/33; ncol2=16; w=-1; offset=-1; strand=R; shift=7; score=0.697932; -------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0
dyads_m7_shift9 (dyads_m7)				; oligos_6nt_mkv4_m2 versus dyads_m7; m=8/33; ncol2=14; w=0; offset=1; strand=D; shift=9; score=0.680371; ---------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0
dyads_m3_shift9 (dyads_m3)				; oligos_6nt_mkv4_m2 versus dyads_m3; m=9/33; ncol2=14; w=0; offset=1; strand=D; shift=9; score=0.673448; ---------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0
dyads_m9_shift11 (dyads_m9)				; oligos_6nt_mkv4_m2 versus dyads_m9; m=10/33; ncol2=13; w=0; offset=3; strand=D; shift=11; score=0.659322; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
positions_6nt_m4_rc_shift3 (positions_6nt_m4_rc)				; oligos_6nt_mkv4_m2 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=-5; offset=-5; strand=R; shift=3; score=0.620183; ---acACACACACACACACACACA ; cor=; Ncor= a 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 c 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 g 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 t 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481
positions_6nt_m1_shift2 (positions_6nt_m1)				; oligos_6nt_mkv4_m2 versus positions_6nt_m1; m=12/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.608752; --caCACACACACACACACACACa ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027
positions_7nt_m3_shift2 (positions_7nt_m3)				; oligos_6nt_mkv4_m2 versus positions_7nt_m3; m=13/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.604892; --cACACACACACACACACACACa ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364
positions_6nt_m3_shift1 (positions_6nt_m3)				; oligos_6nt_mkv4_m2 versus positions_6nt_m3; m=14/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.604861; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643
positions_7nt_m9_shift2 (positions_7nt_m9)				; oligos_6nt_mkv4_m2 versus positions_7nt_m9; m=15/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.603954; --caCACACACACACACACACACa ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974
positions_7nt_m8_shift7 (positions_7nt_m8)				; oligos_6nt_mkv4_m2 versus positions_7nt_m8; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.602142; -------acaCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 c 0 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 g 0 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 t 0 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393
positions_7nt_m7_shift5 (positions_7nt_m7)				; oligos_6nt_mkv4_m2 versus positions_7nt_m7; m=17/33; ncol2=24; w=-3; offset=-3; strand=D; shift=5; score=0.60017; -----acaCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 c 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 g 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 t 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539
positions_6nt_m8_shift8 (positions_6nt_m8)				; oligos_6nt_mkv4_m2 versus positions_6nt_m8; m=18/33; ncol2=24; w=0; offset=0; strand=D; shift=8; score=0.597483; --------caCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 c 0 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 g 0 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 t 0 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354
positions_6nt_m7_shift6 (positions_6nt_m7)				; oligos_6nt_mkv4_m2 versus positions_6nt_m7; m=19/33; ncol2=24; w=-2; offset=-2; strand=D; shift=6; score=0.596497; ------cacamACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 c 0 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 g 0 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 t 0 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153
positions_6nt_m5_shift7 (positions_6nt_m5)				; oligos_6nt_mkv4_m2 versus positions_6nt_m5; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=7; score=0.596444; -------acamACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 c 0 0 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 g 0 0 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 t 0 0 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218
positions_7nt_m10_shift3 (positions_7nt_m10)				; oligos_6nt_mkv4_m2 versus positions_7nt_m10; m=21/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.596372; ---aCACACACACACACACACACA ; cor=; Ncor= a 0 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 c 0 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 g 0 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 t 0 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525
dyads_m8_shift0 (dyads_m8)				; oligos_6nt_mkv4_m2 versus dyads_m8; m=22/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.59519; cacACACACACACACACACACaca ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
dyads_m1_shift0 (dyads_m1)				; oligos_6nt_mkv4_m2 versus dyads_m1; m=23/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.595187; caCaCACACACACACACACACaca ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
positions_6nt_m9_shift2 (positions_6nt_m9)				; oligos_6nt_mkv4_m2 versus positions_6nt_m9; m=24/33; ncol2=24; w=-6; offset=-6; strand=D; shift=2; score=0.593007; --cACACACACACACACACACACA ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831
positions_6nt_m6_shift1 (positions_6nt_m6)				; oligos_6nt_mkv4_m2 versus positions_6nt_m6; m=25/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.592896; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142
positions_7nt_m1_shift0 (positions_7nt_m1)				; oligos_6nt_mkv4_m2 versus positions_7nt_m1; m=26/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.592341; cacACACACACACACACACACACa ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892
positions_7nt_m4_shift1 (positions_7nt_m4)				; oligos_6nt_mkv4_m2 versus positions_7nt_m4; m=27/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.592034; -aCACACACACACACACACACAca ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138
positions_6nt_m2_shift1 (positions_6nt_m2)				; oligos_6nt_mkv4_m2 versus positions_6nt_m2; m=28/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.591795; -mmmmmmaCACACrCACACACaCa ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657
positions_6nt_m10_shift3 (positions_6nt_m10)				; oligos_6nt_mkv4_m2 versus positions_6nt_m10; m=29/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.591061; ---aCACACACACACACACACACA ; cor=; Ncor= a 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 c 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 g 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 t 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930
positions_7nt_m6_shift0 (positions_7nt_m6)				; oligos_6nt_mkv4_m2 versus positions_7nt_m6; m=30/33; ncol2=24; w=-8; offset=-8; strand=D; shift=0; score=0.590436; caCACACACACACACACACACACa ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504
positions_7nt_m2_shift1 (positions_7nt_m2)				; oligos_6nt_mkv4_m2 versus positions_7nt_m2; m=31/33; ncol2=24; w=-7; offset=-7; strand=D; shift=1; score=0.587765; -aCAcACACACACACACACACACA ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703
positions_7nt_m5_shift3 (positions_7nt_m5)				; oligos_6nt_mkv4_m2 versus positions_7nt_m5; m=32/33; ncol2=24; w=-5; offset=-5; strand=D; shift=3; score=0.585988; ---acAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 c 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 g 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 t 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307
oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)				; oligos_6nt_mkv4_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=2; strand=D; shift=10; score=0.576659; ----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m3_shift1 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=12; shift=1; ncol=13; -caCCAmCACCac ; Alignment reference a 0 537 1591 66 86 2670 1679 63 2659 69 354 1474 675 c 0 1526 481 2678 2677 71 919 2713 103 2669 2209 633 1190 g 0 300 368 59 42 43 104 15 52 63 104 430 431 t 0 489 412 49 47 68 150 61 38 51 185 315 556
oligos_7nt_mkv5_m3_shift1 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m3; m=1/3; ncol2=12; w=0; offset=0; strand=D; shift=1; score= 1; -caCCAmCACCac ; cor=; Ncor= a 0 537 1591 66 86 2670 1679 63 2659 69 354 1474 675 c 0 1526 481 2678 2677 71 919 2713 103 2669 2209 633 1190 g 0 300 368 59 42 43 104 15 52 63 104 430 431 t 0 489 412 49 47 68 150 61 38 51 185 315 556
oligos_6nt_mkv4_m4_shift2 (oligos_6nt_mkv4_m4)				; oligos_7nt_mkv5_m3 versus oligos_6nt_mkv4_m4; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.742798; --ammAACACCmc ; cor=; Ncor= a 0 0 603 434 886 1461 1470 34 1378 0 0 542 381 c 0 0 379 473 435 6 49 1453 126 1550 1575 416 540 g 0 0 284 341 132 31 32 32 22 11 3 328 294 t 0 0 322 340 135 90 37 69 62 27 10 302 373
dyads_m6_shift0 (dyads_m6)				; oligos_7nt_mkv5_m3 versus dyads_m6; m=3/3; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.669122; ccACCACCAcc-- ; cor=; Ncor= a 849 627 3918 50 30 4141 38 14 3899 676 705 0 0 c 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 0 0 g 690 543 129 102 115 126 110 85 188 692 474 0 0 t 681 894 234 208 231 102 266 247 146 935 795 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_7nt_m2; m=0 (reference); ncol1=24; shift=1; ncol=25; -aCAcACACACACACACACACACAC ; Alignment reference a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_7nt_m2 versus positions_7nt_m2; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_7nt_m2 versus positions_7nt_m5; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9907; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_7nt_m8_shift1 (positions_7nt_m8)				; positions_7nt_m2 versus positions_7nt_m8; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989639; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309
positions_7nt_m7_shift1 (positions_7nt_m7)				; positions_7nt_m2 versus positions_7nt_m7; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98897; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292
positions_6nt_m5_shift1 (positions_6nt_m5)				; positions_7nt_m2 versus positions_6nt_m5; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.987944; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_7nt_m10_shift1 (positions_7nt_m10)				; positions_7nt_m2 versus positions_7nt_m10; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98793; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_7nt_m4_shift1 (positions_7nt_m4)				; positions_7nt_m2 versus positions_7nt_m4; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986226; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_7nt_m2 versus positions_6nt_m3; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98506; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_6nt_m10_shift1 (positions_6nt_m10)				; positions_7nt_m2 versus positions_6nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98381; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468
positions_6nt_m6_shift1 (positions_6nt_m6)				; positions_7nt_m2 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977234; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; positions_7nt_m2 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.945272; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_7nt_m2 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.918145; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_7nt_m1_shift2 (positions_7nt_m1)				; positions_7nt_m2 versus positions_7nt_m1; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913133; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977
dyads_m8_shift2 (dyads_m8)				; positions_7nt_m2 versus dyads_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913122; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
positions_6nt_m8_shift2 (positions_6nt_m8)				; positions_7nt_m2 versus positions_6nt_m8; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911164; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239
dyads_m1_shift2 (dyads_m1)				; positions_7nt_m2 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910375; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_7nt_m3_shift2 (positions_7nt_m3)				; positions_7nt_m2 versus positions_7nt_m3; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910059; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_7nt_m6_shift0 (positions_7nt_m6)				; positions_7nt_m2 versus positions_7nt_m6; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909898; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0
positions_6nt_m9_shift2 (positions_6nt_m9)				; positions_7nt_m2 versus positions_6nt_m9; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90912; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
positions_7nt_m9_shift2 (positions_7nt_m9)				; positions_7nt_m2 versus positions_7nt_m9; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908633; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
positions_6nt_m7_shift0 (positions_6nt_m7)				; positions_7nt_m2 versus positions_6nt_m7; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.907567; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0
positions_6nt_m1_shift2 (positions_6nt_m1)				; positions_7nt_m2 versus positions_6nt_m1; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90676; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
dyads_m2_shift2 (dyads_m2)				; positions_7nt_m2 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.806882; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0
dyads_m10_shift1 (dyads_m10)				; positions_7nt_m2 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=0; strand=D; shift=1; score=0.736552; -ACACACACACACACrCAC------ ; cor=; Ncor= a 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 0 0 c 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 0 0 g 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 0 0 t 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0 0 0
oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)				; positions_7nt_m2 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.655269; ---------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_6nt_mkv4_m5_rc_shift3 (oligos_6nt_mkv4_m5_rc)				; positions_7nt_m2 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=2; strand=R; shift=3; score=0.608155; ---acAsACACrCACAsac------ ; cor=; Ncor= a 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 0 0 c 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 0 0 g 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 0 0 t 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0 0 0
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; positions_7nt_m2 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.587765; --------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0
dyads_m3_shift1 (dyads_m3)				; positions_7nt_m2 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=0; strand=D; shift=1; score=0.527972; -acAyACACACrCac---------- ; cor=; Ncor= a 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 0 0 0 c 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 0 0 0 g 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 0 0 0 t 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0 0 0 0
oligos_7nt_mkv5_m4_shift12 (oligos_7nt_mkv5_m4)				; positions_7nt_m2 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.526509; ------------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
dyads_m7_shift7 (dyads_m7)				; positions_7nt_m2 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.514169; -------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0
oligos_7nt_mkv5_m5_shift6 (oligos_7nt_mkv5_m5)				; positions_7nt_m2 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=5; strand=D; shift=6; score=0.498496; ------caCACGCACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 0 0 c 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 0 0 g 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 0 0 t 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0 0 0
dyads_m9_shift1 (dyads_m9)				; positions_7nt_m2 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=0; strand=D; shift=1; score=0.462744; -acATACACACmca----------- ; cor=; Ncor= a 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 0 0 0 0 c 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 0 0 0 0 g 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 0 0 0 0 t 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0 0 0 0 0
oligos_7nt_mkv5_m9_shift8 (oligos_7nt_mkv5_m9)				; positions_7nt_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=7; strand=D; shift=8; score=0.417907; --------caCAsACACAAam---- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 c 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 g 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 t 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --maAACACAAmm ; Alignment reference a 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 329 421 49 57 114 35 99 92 54 457 315
oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m1; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --maAACACAAmm ; cor=; Ncor= a 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 329 421 49 57 114 35 99 92 54 457 315
oligos_7nt_mkv5_m9_shift0 (oligos_7nt_mkv5_m9)				; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m9; m=2/3; ncol2=13; w=-2; offset=-2; strand=D; shift=0; score=0.64976; caCAsACACAAam ; cor=; Ncor= a 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 284 218 140 71 96 15 49 13 26 35 42 323 270
oligos_6nt_mkv4_m4_shift1 (oligos_6nt_mkv4_m4)				; oligos_7nt_mkv5_m1 versus oligos_6nt_mkv4_m4; m=3/3; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.586311; -ammAACACCmc- ; cor=; Ncor= a 0 603 434 886 1461 1470 34 1378 0 0 542 381 0 c 0 379 473 435 6 49 1453 126 1550 1575 416 540 0 g 0 284 341 132 31 32 32 22 11 3 328 294 0 t 0 322 340 135 90 37 69 62 27 10 302 373 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m6_shift1 (dyads_m6)				; dyads_m6; m=0 (reference); ncol1=11; shift=1; ncol=12; -ccACCACCAcc ; Alignment reference a 0 849 627 3918 50 30 4141 38 14 3899 676 705 c 0 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 g 0 690 543 129 102 115 126 110 85 188 692 474 t 0 681 894 234 208 231 102 266 247 146 935 795
dyads_m6_shift1 (dyads_m6)				; dyads_m6 versus dyads_m6; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ccACCACCAcc ; cor=; Ncor= a 0 849 627 3918 50 30 4141 38 14 3899 676 705 c 0 2252 2408 191 4112 4096 103 4058 4126 239 2169 2498 g 0 690 543 129 102 115 126 110 85 188 692 474 t 0 681 894 234 208 231 102 266 247 146 935 795
oligos_6nt_mkv4_m1_shift1 (oligos_6nt_mkv4_m1)				; dyads_m6 versus oligos_6nt_mkv4_m1; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.706608; -cycCCACAAmm ; cor=; Ncor= a 0 354 335 306 0 2 1250 50 1267 1364 427 379 c 0 516 530 804 1437 1382 94 1304 72 17 444 541 g 0 254 207 179 0 16 42 44 36 33 264 277 t 0 320 372 155 7 44 58 46 69 30 309 247
oligos_7nt_mkv5_m3_shift2 (oligos_7nt_mkv5_m3)				; dyads_m6 versus oligos_7nt_mkv5_m3; m=3/4; ncol2=12; w=0; offset=1; strand=D; shift=2; score=0.669122; --caCCAmCACC ; cor=; Ncor= a 0 0 537 1591 66 86 2670 1679 63 2659 69 354 c 0 0 1526 481 2678 2677 71 919 2713 103 2669 2209 g 0 0 300 368 59 42 43 104 15 52 63 104 t 0 0 489 412 49 47 68 150 61 38 51 185
oligos_6nt_mkv4_m4_shift0 (oligos_6nt_mkv4_m4)				; dyads_m6 versus oligos_6nt_mkv4_m4; m=4/4; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.593343; ammAACACCmc- ; cor=; Ncor= a 603 434 886 1461 1470 34 1378 0 0 542 381 0 c 379 473 435 6 49 1453 126 1550 1575 416 540 0 g 284 341 132 31 32 32 22 11 3 328 294 0 t 322 340 135 90 37 69 62 27 10 302 373 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_7nt_m5; m=0 (reference); ncol1=24; shift=1; ncol=25; -acAcACACACACACACACACACac ; Alignment reference a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_7nt_m5 versus positions_7nt_m5; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_6nt_m10_shift1 (positions_6nt_m10)				; positions_7nt_m5 versus positions_6nt_m10; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992918; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_7nt_m5 versus positions_7nt_m2; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9907; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_7nt_m8_shift1 (positions_7nt_m8)				; positions_7nt_m5 versus positions_7nt_m8; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988793; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309
positions_7nt_m7_shift1 (positions_7nt_m7)				; positions_7nt_m5 versus positions_7nt_m7; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988678; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292
positions_6nt_m5_shift1 (positions_6nt_m5)				; positions_7nt_m5 versus positions_6nt_m5; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988476; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_7nt_m10_shift1 (positions_7nt_m10)				; positions_7nt_m5 versus positions_7nt_m10; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988301; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_7nt_m4_shift1 (positions_7nt_m4)				; positions_7nt_m5 versus positions_7nt_m4; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.986441; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_7nt_m5 versus positions_6nt_m3; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98513; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_6nt_m6_shift1 (positions_6nt_m6)				; positions_7nt_m5 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977196; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; positions_7nt_m5 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.945349; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_7nt_m5 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.92956; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_7nt_m1_shift2 (positions_7nt_m1)				; positions_7nt_m5 versus positions_7nt_m1; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914778; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977
dyads_m8_shift2 (dyads_m8)				; positions_7nt_m5 versus dyads_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914455; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
positions_7nt_m6_shift0 (positions_7nt_m6)				; positions_7nt_m5 versus positions_7nt_m6; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91026; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0
dyads_m1_shift2 (dyads_m1)				; positions_7nt_m5 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910255; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_6nt_m8_shift2 (positions_6nt_m8)				; positions_7nt_m5 versus positions_6nt_m8; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909855; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239
positions_6nt_m9_shift2 (positions_6nt_m9)				; positions_7nt_m5 versus positions_6nt_m9; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90973; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
positions_7nt_m3_shift2 (positions_7nt_m3)				; positions_7nt_m5 versus positions_7nt_m3; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909596; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_6nt_m7_shift0 (positions_6nt_m7)				; positions_7nt_m5 versus positions_6nt_m7; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909422; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0
positions_7nt_m9_shift0 (positions_7nt_m9)				; positions_7nt_m5 versus positions_7nt_m9; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908105; caCACACACACACACACACACaca- ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 0 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 0 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 0 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341 0
positions_6nt_m1_shift2 (positions_6nt_m1)				; positions_7nt_m5 versus positions_6nt_m1; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.90756; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
dyads_m2_shift2 (dyads_m2)				; positions_7nt_m5 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.811137; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0
dyads_m10_shift3 (dyads_m10)				; positions_7nt_m5 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=2; strand=D; shift=3; score=0.736751; ---ACACACACACACACrCAC---- ; cor=; Ncor= a 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 0 c 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 0 g 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 0 t 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0 0
oligos_7nt_mkv5_m8_shift7 (oligos_7nt_mkv5_m8)				; positions_7nt_m5 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=7; score=0.656823; -------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0
oligos_6nt_mkv4_m5_rc_shift5 (oligos_6nt_mkv4_m5_rc)				; positions_7nt_m5 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=4; strand=R; shift=5; score=0.60839; -----acAsACACrCACAsac---- ; cor=; Ncor= a 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 c 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 g 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 t 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0
oligos_6nt_mkv4_m2_shift6 (oligos_6nt_mkv4_m2)				; positions_7nt_m5 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.585988; ------caCwCACAyACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 c 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 g 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 t 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0
oligos_7nt_mkv5_m4_shift12 (oligos_7nt_mkv5_m4)				; positions_7nt_m5 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.521994; ------------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
dyads_m3_shift3 (dyads_m3)				; positions_7nt_m5 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=2; strand=D; shift=3; score=0.518182; ---acAyACACACrCac-------- ; cor=; Ncor= a 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 0 0 0 0 c 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 0 0 0 0 g 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 0 0 0 0 t 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0 0 0 0 0
dyads_m7_shift9 (dyads_m7)				; positions_7nt_m5 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=8; strand=D; shift=9; score=0.516083; ---------acAyACACACAyac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 c 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 g 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 t 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0
oligos_7nt_mkv5_m5_shift8 (oligos_7nt_mkv5_m5)				; positions_7nt_m5 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=7; strand=D; shift=8; score=0.501474; --------caCACGCACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 c 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 g 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 t 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0
dyads_m9_shift1 (dyads_m9)				; positions_7nt_m5 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=0; strand=D; shift=1; score=0.455053; -acATACACACmca----------- ; cor=; Ncor= a 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 0 0 0 0 0 0 c 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 0 0 0 0 0 0 g 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 0 0 0 0 0 0 t 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0 0 0 0 0 0 0
oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)				; positions_7nt_m5 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.421334; ----------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m1_shift1 (dyads_m1)				; dyads_m1; m=0 (reference); ncol1=24; shift=1; ncol=25; -caCaCACACACACACACACACaca ; Alignment reference a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
dyads_m1_shift1 (dyads_m1)				; dyads_m1 versus dyads_m1; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
dyads_m8_shift1 (dyads_m8)				; dyads_m1 versus dyads_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.996351; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
positions_7nt_m3_shift1 (positions_7nt_m3)				; dyads_m1 versus positions_7nt_m3; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992979; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213
positions_7nt_m9_shift1 (positions_7nt_m9)				; dyads_m1 versus positions_7nt_m9; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992536; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341
positions_6nt_m9_shift1 (positions_6nt_m9)				; dyads_m1 versus positions_6nt_m9; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.99111; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029
positions_6nt_m1_shift1 (positions_6nt_m1)				; dyads_m1 versus positions_6nt_m1; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.990807; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111
positions_6nt_m8_shift1 (positions_6nt_m8)				; dyads_m1 versus positions_6nt_m8; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989754; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160
positions_7nt_m6_shift1 (positions_7nt_m6)				; dyads_m1 versus positions_7nt_m6; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988812; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504
positions_7nt_m1_shift1 (positions_7nt_m1)				; dyads_m1 versus positions_7nt_m1; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988568; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892
positions_6nt_m7_shift1 (positions_6nt_m7)				; dyads_m1 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.977538; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; dyads_m1 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score= 0.9511; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869
positions_7nt_m8_shift0 (positions_7nt_m8)				; dyads_m1 versus positions_7nt_m8; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912995; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0
positions_7nt_m7_shift0 (positions_7nt_m7)				; dyads_m1 versus positions_7nt_m7; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912933; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0
positions_6nt_m10_shift2 (positions_6nt_m10)				; dyads_m1 versus positions_6nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911324; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221
positions_7nt_m10_shift0 (positions_7nt_m10)				; dyads_m1 versus positions_7nt_m10; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910712; aCACACACACACACACACACACac- ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 0 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 0 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 0 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340 0
positions_7nt_m2_shift0 (positions_7nt_m2)				; dyads_m1 versus positions_7nt_m2; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910375; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0
positions_6nt_m3_shift0 (positions_6nt_m3)				; dyads_m1 versus positions_6nt_m3; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91034; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0
positions_7nt_m5_shift0 (positions_7nt_m5)				; dyads_m1 versus positions_7nt_m5; m=18/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.910255; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0
positions_7nt_m4_shift2 (positions_7nt_m4)				; dyads_m1 versus positions_7nt_m4; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909832; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138
positions_6nt_m6_shift0 (positions_6nt_m6)				; dyads_m1 versus positions_6nt_m6; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908829; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0
positions_6nt_m5_shift0 (positions_6nt_m5)				; dyads_m1 versus positions_6nt_m5; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908686; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0
positions_6nt_m2_shift0 (positions_6nt_m2)				; dyads_m1 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.864772; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0
dyads_m2_shift3 (dyads_m2)				; dyads_m1 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=2; strand=D; shift=3; score=0.812587; ---camACACACACACACACaca-- ; cor=; Ncor= a 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 c 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 g 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 t 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0
dyads_m10_shift4 (dyads_m10)				; dyads_m1 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.740027; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)				; dyads_m1 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.658892; --------ACACACACACACACAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0
oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)				; dyads_m1 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.600475; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0
oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)				; dyads_m1 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.595187; ---------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)				; dyads_m1 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.523469; ---caCACAcACACac--------- ; cor=; Ncor= a 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 c 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 g 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 t 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0
dyads_m3_shift10 (dyads_m3)				; dyads_m1 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.51351; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0
dyads_m7_shift10 (dyads_m7)				; dyads_m1 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.510152; ----------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0
oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)				; dyads_m1 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.496459; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
dyads_m9_shift12 (dyads_m9)				; dyads_m1 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.459694; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; dyads_m1 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.421586; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m8_shift1 (dyads_m8)				; dyads_m8; m=0 (reference); ncol1=24; shift=1; ncol=25; -cacACACACACACACACACACaca ; Alignment reference a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
dyads_m8_shift1 (dyads_m8)				; dyads_m8 versus dyads_m8; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -cacACACACACACACACACACaca ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
dyads_m1_shift1 (dyads_m1)				; dyads_m8 versus dyads_m1; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.996351; -caCaCACACACACACACACACaca ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
positions_7nt_m9_shift1 (positions_7nt_m9)				; dyads_m8 versus positions_7nt_m9; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993808; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341
positions_7nt_m1_shift1 (positions_7nt_m1)				; dyads_m8 versus positions_7nt_m1; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.993368; -cacACACACACACACACACACACa ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892
positions_6nt_m1_shift1 (positions_6nt_m1)				; dyads_m8 versus positions_6nt_m1; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992491; -caCACACACACACACACACACaca ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111
positions_6nt_m8_shift1 (positions_6nt_m8)				; dyads_m8 versus positions_6nt_m8; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.992279; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160
positions_7nt_m3_shift1 (positions_7nt_m3)				; dyads_m8 versus positions_7nt_m3; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991956; -cACACACACACACACACACACaca ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213
positions_6nt_m9_shift1 (positions_6nt_m9)				; dyads_m8 versus positions_6nt_m9; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.991203; -cACACACACACACACACACACAca ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029
positions_7nt_m6_shift1 (positions_7nt_m6)				; dyads_m8 versus positions_7nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989796; -caCACACACACACACACACACACa ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504
positions_6nt_m7_shift1 (positions_6nt_m7)				; dyads_m8 versus positions_6nt_m7; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.980411; -cacamACACACACACACACACACA ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; dyads_m8 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=1; strand=R; shift=2; score=0.951717; --acACACACACACACACACACAca ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869
positions_7nt_m5_shift0 (positions_7nt_m5)				; dyads_m8 versus positions_7nt_m5; m=12/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914455; acAcACACACACACACACACACac- ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 0 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 0 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 0 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011 0
positions_6nt_m5_shift0 (positions_6nt_m5)				; dyads_m8 versus positions_6nt_m5; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.914144; acamACACACACACACACACACAC- ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 0 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 0 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 0 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782 0
positions_6nt_m10_shift2 (positions_6nt_m10)				; dyads_m8 versus positions_6nt_m10; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913599; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221
positions_7nt_m2_shift0 (positions_7nt_m2)				; dyads_m8 versus positions_7nt_m2; m=15/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.913122; aCAcACACACACACACACACACAC- ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 0 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 0 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 0 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899 0
positions_7nt_m7_shift0 (positions_7nt_m7)				; dyads_m8 versus positions_7nt_m7; m=16/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.91296; acaCACACACACACACACACACac- ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 0 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 0 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 0 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292 0
positions_7nt_m8_shift0 (positions_7nt_m8)				; dyads_m8 versus positions_7nt_m8; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.912698; acaCACACACACACACACACACac- ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 0 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 0 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 0 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309 0
positions_7nt_m10_shift2 (positions_7nt_m10)				; dyads_m8 versus positions_7nt_m10; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912297; --aCACACACACACACACACACACa ; cor=; Ncor= a 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101
positions_7nt_m4_shift2 (positions_7nt_m4)				; dyads_m8 versus positions_7nt_m4; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912237; --aCACACACACACACACACACAca ; cor=; Ncor= a 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138
positions_6nt_m3_shift0 (positions_6nt_m3)				; dyads_m8 versus positions_6nt_m3; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909791; acrCACACACACACACACACACac- ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 0 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 0 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 0 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763 0
positions_6nt_m6_shift0 (positions_6nt_m6)				; dyads_m8 versus positions_6nt_m6; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.908007; acaCacACACACACACACACACac- ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 0 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 0 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 0 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244 0
positions_6nt_m2_shift0 (positions_6nt_m2)				; dyads_m8 versus positions_6nt_m2; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.869946; mmmmmmaCACACrCACACACaCac- ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 0 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 0 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 0 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690 0
dyads_m2_shift3 (dyads_m2)				; dyads_m8 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=2; strand=D; shift=3; score=0.813645; ---camACACACACACACACaca-- ; cor=; Ncor= a 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 c 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 g 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 t 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0
dyads_m10_shift4 (dyads_m10)				; dyads_m8 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=3; strand=D; shift=4; score=0.740888; ----ACACACACACACACrCAC--- ; cor=; Ncor= a 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 0 0 0 c 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 0 0 0 g 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 0 0 0 t 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123 0 0 0
oligos_7nt_mkv5_m8_shift6 (oligos_7nt_mkv5_m8)				; dyads_m8 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.659078; ------ACACACACACACACAC--- ; cor=; Ncor= a 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 0 c 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 0 g 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 0 t 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0 0
oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)				; dyads_m8 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=7; strand=R; shift=8; score=0.600145; --------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0
oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)				; dyads_m8 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.59519; ---------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)				; dyads_m8 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=2; strand=D; shift=3; score=0.524165; ---caCACAcACACac--------- ; cor=; Ncor= a 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 0 c 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 0 g 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 0 t 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0 0
dyads_m3_shift10 (dyads_m3)				; dyads_m8 versus dyads_m3; m=29/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.513508; ----------acAyACACACrCac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0
dyads_m7_shift10 (dyads_m7)				; dyads_m8 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.510348; ----------acAyACACACAyac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0
oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)				; dyads_m8 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.496063; -----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
dyads_m9_shift12 (dyads_m9)				; dyads_m8 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.460028; ------------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; dyads_m8 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.422022; -----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m7_shift10 (dyads_m7)				; dyads_m7; m=0 (reference); ncol1=14; shift=10; ncol=24; ----------acAyACACACAyac ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m7_shift10 (dyads_m7)				; dyads_m7 versus dyads_m7; m=1/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score= 1; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m3_shift10 (dyads_m3)				; dyads_m7 versus dyads_m3; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score=0.875018; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
dyads_m9_shift10 (dyads_m9)				; dyads_m7 versus dyads_m9; m=3/33; ncol2=13; w=0; offset=0; strand=D; shift=10; score=0.847495; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)				; dyads_m7 versus oligos_7nt_mkv5_m4; m=4/33; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.781989; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)				; dyads_m7 versus oligos_7nt_mkv5_m8; m=5/33; ncol2=16; w=-2; offset=-2; strand=D; shift=8; score=0.771124; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)				; dyads_m7 versus oligos_6nt_mkv4_m5_rc; m=6/33; ncol2=16; w=-2; offset=-2; strand=R; shift=8; score=0.714257; --------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; dyads_m7 versus oligos_7nt_mkv5_m9; m=7/33; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.702162; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270
dyads_m10_shift10 (dyads_m10)				; dyads_m7 versus dyads_m10; m=8/33; ncol2=18; w=0; offset=0; strand=D; shift=10; score=0.69727; ----------ACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 c 0 0 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 g 0 0 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 t 0 0 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221
oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)				; dyads_m7 versus oligos_6nt_mkv4_m2; m=9/33; ncol2=16; w=-1; offset=-1; strand=D; shift=9; score=0.680371; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362
oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)				; dyads_m7 versus oligos_7nt_mkv5_m5; m=10/33; ncol2=14; w=-1; offset=-1; strand=D; shift=9; score=0.64277; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0
dyads_m2_shift5 (dyads_m2)				; dyads_m7 versus dyads_m2; m=11/33; ncol2=20; w=-5; offset=-5; strand=D; shift=5; score=0.602065; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; dyads_m7 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=-8; offset=-8; strand=R; shift=2; score=0.529623; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940
positions_6nt_m1_shift7 (positions_6nt_m1)				; dyads_m7 versus positions_6nt_m1; m=13/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.525649; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 c 0 0 0 0 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 g 0 0 0 0 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 t 0 0 0 0 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322
positions_6nt_m9_shift1 (positions_6nt_m9)				; dyads_m7 versus positions_6nt_m9; m=14/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.524881; -cACACACACACACACACACACAc ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
positions_7nt_m10_shift0 (positions_7nt_m10)				; dyads_m7 versus positions_7nt_m10; m=15/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.524148; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_7nt_m9_shift7 (positions_7nt_m9)				; dyads_m7 versus positions_7nt_m9; m=16/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.523454; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 c 0 0 0 0 0 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 g 0 0 0 0 0 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 t 0 0 0 0 0 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399
positions_7nt_m5_shift2 (positions_7nt_m5)				; dyads_m7 versus positions_7nt_m5; m=17/33; ncol2=24; w=-8; offset=-8; strand=D; shift=2; score=0.516083; --acAcACACACACACACACACAC ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599
positions_7nt_m1_shift3 (positions_7nt_m1)				; dyads_m7 versus positions_7nt_m1; m=18/33; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.515957; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 c 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 g 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 t 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570
positions_7nt_m6_shift7 (positions_7nt_m6)				; dyads_m7 versus positions_7nt_m6; m=19/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.514855; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 c 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 g 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 t 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567
positions_6nt_m3_shift0 (positions_6nt_m3)				; dyads_m7 versus positions_6nt_m3; m=20/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.514408; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m2_shift4 (positions_7nt_m2)				; dyads_m7 versus positions_7nt_m2; m=21/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.514169; ----aCAcACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 c 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 g 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 t 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305
positions_6nt_m10_shift2 (positions_6nt_m10)				; dyads_m7 versus positions_6nt_m10; m=22/33; ncol2=24; w=-8; offset=-8; strand=D; shift=2; score=0.51389; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246
positions_7nt_m4_shift0 (positions_7nt_m4)				; dyads_m7 versus positions_7nt_m4; m=23/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.513508; aCACACACACACACACACACAcac ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_7nt_m3_shift7 (positions_7nt_m3)				; dyads_m7 versus positions_7nt_m3; m=24/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.51303; -------cACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 c 0 0 0 0 0 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 g 0 0 0 0 0 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 t 0 0 0 0 0 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395
positions_6nt_m7_shift3 (positions_6nt_m7)				; dyads_m7 versus positions_6nt_m7; m=25/33; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.512076; ---cacamACACACACACACACAC ; cor=; Ncor= a 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 c 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 g 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 t 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153
positions_6nt_m5_shift4 (positions_6nt_m5)				; dyads_m7 versus positions_6nt_m5; m=26/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.512022; ----acamACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 c 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 g 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 t 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221
positions_6nt_m8_shift5 (positions_6nt_m8)				; dyads_m7 versus positions_6nt_m8; m=27/33; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.511823; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 c 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 g 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 t 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475
positions_7nt_m8_shift4 (positions_7nt_m8)				; dyads_m7 versus positions_7nt_m8; m=28/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.511426; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 c 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 g 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 t 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471
positions_7nt_m7_shift10 (positions_7nt_m7)				; dyads_m7 versus positions_7nt_m7; m=29/33; ncol2=24; w=0; offset=0; strand=D; shift=10; score=0.510815; ----------acaCACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 c 0 0 0 0 0 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 g 0 0 0 0 0 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 t 0 0 0 0 0 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355
dyads_m8_shift1 (dyads_m8)				; dyads_m7 versus dyads_m8; m=30/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.510348; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
dyads_m1_shift1 (dyads_m1)				; dyads_m7 versus dyads_m1; m=31/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.510152; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_6nt_m6_shift0 (positions_6nt_m6)				; dyads_m7 versus positions_6nt_m6; m=32/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.506416; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m2_shift0 (positions_6nt_m2)				; dyads_m7 versus positions_6nt_m2; m=33/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.50279; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m4_shift1 (oligos_6nt_mkv4_m4)				; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -ammAACACCmc ; Alignment reference a 0 603 434 886 1461 1470 34 1378 0 0 542 381 c 0 379 473 435 6 49 1453 126 1550 1575 416 540 g 0 284 341 132 31 32 32 22 11 3 328 294 t 0 322 340 135 90 37 69 62 27 10 302 373
oligos_6nt_mkv4_m4_shift1 (oligos_6nt_mkv4_m4)				; oligos_6nt_mkv4_m4 versus oligos_6nt_mkv4_m4; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ammAACACCmc ; cor=; Ncor= a 0 603 434 886 1461 1470 34 1378 0 0 542 381 c 0 379 473 435 6 49 1453 126 1550 1575 416 540 g 0 284 341 132 31 32 32 22 11 3 328 294 t 0 322 340 135 90 37 69 62 27 10 302 373
oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)				; oligos_6nt_mkv4_m4 versus oligos_7nt_mkv5_m3; m=2/4; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.742798; caCCAmCACCac ; cor=; Ncor= a 537 1591 66 86 2670 1679 63 2659 69 354 1474 675 c 1526 481 2678 2677 71 919 2713 103 2669 2209 633 1190 g 300 368 59 42 43 104 15 52 63 104 430 431 t 489 412 49 47 68 150 61 38 51 185 315 556
dyads_m6_shift2 (dyads_m6)				; oligos_6nt_mkv4_m4 versus dyads_m6; m=3/4; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.593343; --ccACCACCAc ; cor=; Ncor= a 0 0 849 627 3918 50 30 4141 38 14 3899 676 c 0 0 2252 2408 191 4112 4096 103 4058 4126 239 2169 g 0 0 690 543 129 102 115 126 110 85 188 692 t 0 0 681 894 234 208 231 102 266 247 146 935
oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1)				; oligos_6nt_mkv4_m4 versus oligos_7nt_mkv5_m1; m=4/4; ncol2=11; w=0; offset=1; strand=D; shift=2; score=0.586311; --maAACACAAm ; cor=; Ncor= a 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 c 0 0 544 437 1 22 1609 67 1586 57 20 518 g 0 0 384 449 28 54 61 58 114 51 39 350 t 0 0 329 421 49 57 114 35 99 92 54 457

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_6nt_m4; m=0 (reference); ncol1=23; shift=1; ncol=24; -tgTGTGTGTGTGTGTGTGTGTgt ; Alignment reference a 0 1869 1940 1481 1344 1840 623 372 436 277 498 231 457 573 405 426 408 499 528 1543 1258 1354 1867 1856 c 0 2802 1645 2135 1065 1900 370 599 151 686 134 463 155 2637 178 555 155 837 257 1774 699 1813 1200 2286 g 0 1953 10414 1328 12216 827 14220 213 14801 85 14762 73 14723 251 14711 140 14693 207 14293 911 12206 1415 10347 2259 t 0 8945 1570 10625 944 11002 356 14385 181 14521 175 14802 234 12108 275 14448 313 14026 491 11341 1406 10987 2155 9168
positions_6nt_m4_shift1 (positions_6nt_m4)				; positions_6nt_m4 versus positions_6nt_m4; m=1/33; ncol2=23; w=0; offset=0; strand=D; shift=1; score= 1; -tgTGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 0 1869 1940 1481 1344 1840 623 372 436 277 498 231 457 573 405 426 408 499 528 1543 1258 1354 1867 1856 c 0 2802 1645 2135 1065 1900 370 599 151 686 134 463 155 2637 178 555 155 837 257 1774 699 1813 1200 2286 g 0 1953 10414 1328 12216 827 14220 213 14801 85 14762 73 14723 251 14711 140 14693 207 14293 911 12206 1415 10347 2259 t 0 8945 1570 10625 944 11002 356 14385 181 14521 175 14802 234 12108 275 14448 313 14026 491 11341 1406 10987 2155 9168
dyads_m8_rc_shift1 (dyads_m8_rc)				; positions_6nt_m4 versus dyads_m8_rc; m=2/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.951717; -tgtGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 0 1765 1875 1252 1018 723 819 410 710 289 645 246 574 282 550 300 555 332 645 460 844 712 1507 1469 c 0 2869 1726 3745 819 1373 462 1093 313 745 262 637 209 557 197 592 223 649 314 934 438 1235 869 2091 g 0 1857 10264 1125 12885 530 13684 266 14072 170 14210 129 14354 122 14348 177 14205 246 13798 457 13137 1015 9925 2187 t 0 8918 1544 9287 687 12783 444 13640 314 14205 292 14397 272 14448 314 14340 426 14182 652 13558 990 12447 3108 9662
dyads_m1_rc_shift1 (dyads_m1_rc)				; positions_6nt_m4 versus dyads_m1_rc; m=3/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score= 0.9511; -tgtGTGTGTGTGTGTGTGTGtGt ; cor=; Ncor= a 0 1761 1900 1262 1017 719 776 416 710 305 619 265 559 286 519 303 528 375 622 547 841 1010 1184 1576 c 0 2869 1699 3714 799 1375 453 1076 316 778 250 646 215 577 195 601 199 840 252 1059 380 3187 650 2297 g 0 1821 10161 1103 12789 530 13607 285 13915 162 14125 120 14219 116 14223 154 14154 248 13883 394 13299 996 12212 1805 t 0 8820 1511 9192 666 12647 435 13494 330 14026 277 14240 278 14292 334 14213 390 13808 514 13271 751 10078 1225 9593
positions_7nt_m7_rc_shift0 (positions_7nt_m7_rc)				; positions_6nt_m4 versus positions_7nt_m7_rc; m=4/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.949186; gtGTGTGTGTGTGTGTGTGTGtgt ; cor=; Ncor= a 1292 1102 651 494 600 539 530 262 437 164 355 164 1356 186 379 210 368 236 456 376 662 850 1393 1227 c 1313 2014 513 974 303 2504 268 566 151 521 148 313 258 346 140 312 148 437 183 606 283 1472 847 1549 g 7524 985 9636 353 10067 348 10237 139 10478 73 10644 124 9231 118 10557 121 10497 179 10278 348 9662 1409 7471 1608 t 1139 7167 468 9447 298 7877 233 10301 202 10510 121 10667 423 10618 192 10625 255 10416 351 9938 661 7537 1557 6884
positions_7nt_m9_rc_shift1 (positions_7nt_m9_rc)				; positions_6nt_m4 versus positions_7nt_m9_rc; m=5/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.94793; -tgtGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1341 1371 974 539 328 416 166 399 165 1676 178 322 147 309 150 367 239 843 539 841 730 1106 1239 c 0 1995 1266 1536 441 537 207 372 170 388 323 340 119 246 118 299 133 419 399 847 556 1055 668 1733 g 0 1380 8048 1343 10512 246 11039 129 11169 107 9462 96 11287 78 11259 104 11115 279 8689 766 9491 890 8743 1545 t 0 7165 1196 8028 389 10770 219 11214 143 11221 420 11267 153 11410 195 11328 266 10944 1950 9729 993 9206 1364 7364
positions_6nt_m10_rc_shift0 (positions_6nt_m10_rc)				; positions_6nt_m4 versus positions_6nt_m10_rc; m=6/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.947266; gtGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 1468 1221 1246 930 1127 343 383 185 371 139 416 330 329 162 279 156 326 191 1835 426 741 592 1346 1121 c 1480 2000 1142 1444 1280 536 220 513 135 387 138 2051 159 316 109 413 135 387 411 769 423 891 806 1606 g 7303 1307 8314 953 8556 287 10912 124 11035 64 11004 173 11051 68 11129 86 11008 183 8621 510 9791 784 8063 1500 t 1442 7165 991 8366 730 10527 178 10871 152 11103 135 9139 154 11147 176 11038 224 10932 826 9988 738 9426 1478 7466
positions_7nt_m6_rc_shift1 (positions_7nt_m6_rc)				; positions_6nt_m4 versus positions_7nt_m6_rc; m=7/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.946901; -tGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1504 1590 684 642 371 606 268 567 468 569 278 432 231 424 258 528 399 1088 782 1160 1033 1483 1633 c 0 2360 1342 1092 414 974 260 731 241 2462 263 563 181 628 188 559 253 743 530 1163 768 1500 975 2227 g 0 1533 10480 562 13243 217 13515 138 13581 248 13557 115 13783 94 13684 179 13318 452 10605 1051 11358 1312 10403 1996 t 0 9253 1238 12312 351 13088 269 13513 261 11472 261 13694 254 13697 354 13654 551 13056 2427 11654 1364 10805 1789 8794
positions_7nt_m10_rc_shift0 (positions_7nt_m10_rc)				; positions_6nt_m4 versus positions_7nt_m10_rc; m=8/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.946686; gtGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 1340 1101 1137 525 475 259 434 157 403 186 742 165 281 157 310 190 347 418 426 360 494 489 1192 1015 c 1328 1683 1253 667 330 484 199 417 176 417 331 268 129 361 117 327 150 1960 256 588 272 826 684 1501 g 6806 1177 7432 432 9615 201 9842 105 9932 135 8714 125 10130 69 10084 83 9935 300 9630 288 9383 487 7487 1303 t 1199 6712 851 9049 253 9729 198 9994 162 9935 886 10115 133 10086 162 10073 241 7995 361 9437 524 8871 1310 6854
positions_6nt_m8_rc_shift1 (positions_6nt_m8_rc)				; positions_6nt_m4 versus positions_6nt_m8_rc; m=9/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.946198; -tGTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1160 1239 510 493 307 475 212 495 354 427 172 302 156 329 193 1372 241 430 296 509 436 1201 1053 c 0 1801 1073 784 346 754 203 565 193 1914 194 382 129 432 140 365 347 451 218 532 257 774 836 1579 g 0 1158 7963 440 10108 186 10324 113 10341 187 10408 74 10602 69 10552 157 8887 197 10173 286 9927 550 7812 1420 t 0 7092 936 9477 264 9964 209 10321 182 8756 182 10583 178 10554 190 10496 605 10322 390 10097 518 9451 1362 7159
positions_6nt_m1_rc_shift1 (positions_6nt_m1_rc)				; positions_6nt_m4 versus positions_6nt_m1_rc; m=10/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.94609; -tgtGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 0 1111 1256 1027 1006 336 335 138 322 130 1646 160 286 107 228 68 251 154 683 379 627 540 904 973 c 0 1827 1211 1449 814 422 201 272 128 270 304 255 102 181 87 181 80 260 322 633 409 747 542 1442 g 0 1360 6633 1249 7183 313 9532 107 9678 117 7946 85 9760 60 9816 64 9728 189 7492 566 8487 663 7674 1249 t 0 5953 1151 6526 1248 9180 183 9734 123 9734 355 9751 103 9903 120 9938 192 9648 1754 8673 728 8301 1131 6587
positions_7nt_m1_rc_shift1 (positions_7nt_m1_rc)				; positions_6nt_m4 versus positions_7nt_m1_rc; m=11/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.945887; -tGTGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 0 892 977 464 570 236 1546 178 304 117 245 87 227 100 223 278 223 147 243 180 340 291 775 771 c 0 1393 933 787 390 443 356 357 121 220 78 246 55 228 80 1413 110 307 105 475 165 497 380 1135 g 0 954 6223 474 7636 242 6672 147 8367 63 8506 41 8541 42 8486 145 8387 77 8297 155 8011 420 5720 1210 t 0 5670 776 7184 313 7988 335 8227 117 8509 80 8535 86 8539 120 7073 189 8378 264 8099 393 7701 2034 5793
positions_7nt_m5_rc_shift0 (positions_7nt_m5_rc)				; positions_6nt_m4 versus positions_7nt_m5_rc; m=12/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.945349; gtGTGTGTGTGTGTGTGTGTgTgt ; cor=; Ncor= a 1011 789 599 307 1563 172 300 127 269 81 238 256 241 119 201 136 239 136 288 218 738 522 995 847 c 986 1294 508 531 396 369 119 314 94 241 85 1413 98 242 83 316 98 320 158 409 325 712 695 1138 g 6003 774 7395 299 6562 154 8377 70 8441 39 8486 116 8442 55 8461 51 8348 133 8101 323 5963 855 5955 1267 t 896 6039 394 7759 375 8201 100 8385 92 8535 87 7111 115 8480 151 8393 211 8307 349 7946 1870 6807 1251 5644
positions_7nt_m2_rc_shift0 (positions_7nt_m2_rc)				; positions_6nt_m4 versus positions_7nt_m2_rc; m=13/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.945272; GTGTGTGTGTGTGTGTGTGTgTGt ; cor=; Ncor= a 899 703 349 190 305 147 1345 111 229 100 225 89 208 236 239 132 238 156 292 214 1599 464 973 803 c 793 1117 245 392 126 368 236 235 97 281 63 209 63 1247 108 237 90 333 131 419 328 639 548 1041 g 5681 572 7206 134 7486 123 6214 74 7661 59 7704 42 7707 132 7574 81 7560 116 7405 252 5476 632 5510 1101 t 696 5677 269 7353 152 7431 274 7649 82 7629 77 7729 91 6454 148 7619 181 7464 241 7184 666 6334 1038 5124
positions_7nt_m4_rc_shift0 (positions_7nt_m4_rc)				; positions_6nt_m4 versus positions_7nt_m4_rc; m=14/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.945114; gtgTGTGTGTGTGTGTGTGTGTGt ; cor=; Ncor= a 1282 1138 1133 484 448 286 450 198 459 334 405 158 274 144 303 173 1329 202 384 256 448 370 1126 919 c 1302 1605 965 665 322 669 188 500 185 1863 186 333 121 377 120 292 320 362 183 426 212 602 613 1337 g 6419 1148 6894 448 9195 179 9390 117 9408 184 9478 70 9669 64 9637 136 8039 174 9346 238 9154 432 7287 1193 t 1215 6327 1226 8621 253 9084 190 9403 166 7837 149 9657 154 9633 158 9617 530 9480 305 9298 404 8814 1192 6769
positions_7nt_m3_rc_shift1 (positions_7nt_m3_rc)				; positions_6nt_m4 versus positions_7nt_m3_rc; m=15/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.944941; -tgtGTGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 1213 1267 1364 527 362 429 209 395 214 1431 168 300 148 297 147 315 388 382 316 408 384 555 869 c 0 1773 1184 1323 447 572 191 424 179 460 323 291 112 315 71 274 94 1714 179 456 175 663 245 1399 g 0 1215 6578 783 8727 267 9198 142 9300 135 7899 104 9514 68 9569 57 9454 230 9198 200 9117 302 8739 940 t 0 5839 1011 6570 339 8839 222 9265 166 9231 387 9477 114 9509 103 9562 177 7708 281 9068 340 8691 501 6832
positions_6nt_m9_rc_shift1 (positions_6nt_m9_rc)				; positions_6nt_m4 versus positions_6nt_m9_rc; m=16/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score= 0.9442; -tgTGTGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 1029 1214 831 1037 413 406 182 352 131 382 137 685 123 250 122 286 162 1404 222 386 281 480 739 c 0 1728 1164 1238 1235 525 272 354 167 318 155 308 275 213 118 186 119 267 281 344 188 463 248 1302 g 0 1189 6407 859 6900 314 8948 146 9128 71 9123 103 8031 103 9295 89 9220 128 7589 221 8922 289 8605 914 t 0 5864 1025 6882 638 8558 184 9128 163 9290 150 9262 819 9371 147 9413 185 9253 536 9023 314 8777 477 6855
positions_7nt_m8_rc_shift0 (positions_7nt_m8_rc)				; positions_6nt_m4 versus positions_7nt_m8_rc; m=17/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.943945; gtGTGTGTGTGTGTGTGTGTGtgt ; cor=; Ncor= a 1309 1016 546 385 471 280 509 393 445 194 325 148 296 171 1345 221 372 297 436 383 608 1188 1430 1251 c 1196 1646 454 873 216 671 203 2065 208 416 123 420 121 309 306 382 158 421 159 581 294 1424 793 1522 g 7237 883 9432 253 9861 173 9898 222 9967 77 10189 64 10254 128 8652 155 9994 221 9874 353 9347 998 7139 1532 t 1063 7260 373 9294 257 9681 195 8125 185 10118 168 10173 134 10197 502 10047 281 9866 336 9488 556 7195 1443 6500
positions_6nt_m3_rc_shift0 (positions_6nt_m3_rc)				; positions_6nt_m4 versus positions_6nt_m3_rc; m=18/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.942372; gtGTGTGTGTGTGTGTGTGTGygt ; cor=; Ncor= a 763 643 617 213 204 96 196 80 1028 73 143 59 134 66 389 98 170 98 190 138 268 389 830 678 c 772 882 746 252 138 182 96 181 197 148 78 121 42 120 158 136 80 220 74 275 116 1795 478 907 g 4311 642 4713 184 6030 84 6106 60 5061 49 6196 25 6244 58 5226 94 6106 77 6062 145 5903 428 4387 818 t 637 4316 407 5834 111 6121 85 6162 197 6213 66 6278 63 6239 710 6155 127 6088 157 5925 196 3871 788 4080
positions_6nt_m7_rc_shift1 (positions_6nt_m7_rc)				; positions_6nt_m4 versus positions_6nt_m7_rc; m=19/33; ncol2=24; w=0; offset=0; strand=R; shift=1; score=0.937824; -TGTGTGTGTGTGTGTGTGTktgt ; cor=; Ncor= a 0 446 534 115 153 85 165 153 132 59 96 38 114 47 899 65 110 76 188 127 430 408 614 665 c 0 726 357 232 59 174 50 1094 63 122 36 138 36 99 127 136 73 160 67 262 239 549 487 733 g 0 485 4753 109 5709 54 5722 73 5736 31 5806 25 5793 62 4694 79 5668 114 5526 245 3731 1268 3578 996 t 0 4340 353 5541 76 5684 60 4677 66 5785 59 5796 54 5789 277 5717 146 5647 216 5363 1597 3772 1318 3603
positions_6nt_m6_rc_shift0 (positions_6nt_m6_rc)				; positions_6nt_m4 versus positions_6nt_m6_rc; m=20/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.937625; gtGTGTGTGTGTGTGTGTgtGtgt ; cor=; Ncor= a 1244 1142 820 1256 194 189 204 139 193 331 227 127 141 140 223 178 300 631 932 869 895 1035 1390 1328 c 1023 1499 660 1051 129 337 54 217 60 1952 105 195 49 300 61 256 151 1076 540 1014 718 1117 953 1480 g 6677 1066 7825 511 9519 85 9636 49 9623 131 9499 64 9641 71 9522 169 9166 1286 6536 1877 7182 1310 5987 1768 t 1014 6251 653 7140 116 9347 64 9553 82 7544 127 9572 127 9447 152 9355 341 6965 1950 6198 1163 6496 1628 5382
positions_6nt_m5_rc_shift0 (positions_6nt_m5_rc)				; positions_6nt_m4 versus positions_6nt_m5_rc; m=21/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.936184; GTGTGTGTGTGTGTGTGTGTktgt ; cor=; Ncor= a 782 585 250 169 221 115 249 218 207 79 148 62 142 76 1024 106 190 140 268 214 635 618 945 847 c 669 905 162 347 81 278 61 1330 93 172 47 195 55 168 190 189 94 262 109 379 319 799 695 925 g 5039 524 6581 111 6732 58 6728 103 6720 39 6841 34 6839 95 5545 113 6628 163 6462 345 4316 1330 4265 1196 t 629 5105 126 6492 85 6668 81 5468 99 6829 83 6828 83 6780 360 6711 207 6554 280 6181 1849 4372 1214 4151
positions_6nt_m2_rc_shift0 (positions_6nt_m2_rc)				; positions_6nt_m4 versus positions_6nt_m2_rc; m=22/33; ncol2=24; w=-1; offset=-1; strand=R; shift=0; score=0.877849; gtGtGTGTGTGyGTGTGtkkkkkk ; cor=; Ncor= a 690 657 490 890 143 110 100 65 114 72 125 230 106 117 146 140 223 461 704 653 788 810 1002 1057 c 586 904 386 609 91 132 34 173 33 113 57 1466 67 151 56 280 133 830 428 682 659 682 884 937 g 3623 638 4284 347 5169 63 5331 32 5314 30 5239 121 5231 74 5173 124 4839 1221 2553 1977 2024 2209 2207 1544 t 615 3315 354 3668 111 5209 49 5244 53 5299 93 3697 110 5172 139 4970 319 3002 1829 2202 2043 1813 1421 1976
dyads_m2_rc_shift3 (dyads_m2_rc)				; positions_6nt_m4 versus dyads_m2_rc; m=23/33; ncol2=20; w=0; offset=2; strand=R; shift=3; score=0.857624; ---tgtGTGTGTGTGTGTGTktg- ; cor=; Ncor= a 0 0 0 816 822 1308 144 117 69 74 92 54 121 200 100 73 58 58 114 113 414 477 688 0 c 0 0 0 1111 639 729 100 141 32 170 29 110 40 1298 50 104 40 204 44 203 227 801 544 0 g 0 0 0 760 3514 357 5174 78 5404 26 5384 14 5322 80 5333 28 5358 40 5234 170 3227 891 3349 0 t 0 0 0 2859 571 3152 128 5210 41 5276 41 5368 63 3968 63 5341 90 5244 154 5060 1678 3377 965 0
dyads_m10_rc_shift2 (dyads_m10_rc)				; positions_6nt_m4 versus dyads_m10_rc; m=24/33; ncol2=18; w=0; offset=1; strand=R; shift=2; score=0.772107; --GTGyGTGTGTGTGTGTGT---- ; cor=; Ncor= a 0 0 1123 902 380 480 221 201 229 125 245 110 261 88 252 141 2074 220 1055 739 0 0 0 0 c 0 0 877 1578 284 2725 180 355 87 269 69 179 64 171 86 208 286 342 600 1101 0 0 0 0 g 0 0 7303 744 9327 320 9671 113 9764 42 9807 58 9760 75 9753 129 7314 282 7513 1135 0 0 0 0 t 0 0 910 6989 222 6688 141 9544 133 9777 92 9866 128 9879 122 9735 539 9369 1045 7238 0 0 0 0
oligos_7nt_mkv5_m8_rc_shift4 (oligos_7nt_mkv5_m8_rc)				; positions_6nt_m4 versus oligos_7nt_mkv5_m8_rc; m=25/33; ncol2=16; w=0; offset=3; strand=R; shift=4; score=0.68675; ----GTGTGTGTGTGTGTGT---- ; cor=; Ncor= a 0 0 0 0 1224 929 839 201 176 67 180 73 1978 55 133 73 155 65 855 646 0 0 0 0 c 0 0 0 0 1137 1414 1684 216 131 141 98 144 261 127 82 126 68 157 434 1252 0 0 0 0 g 0 0 0 0 7805 1031 8182 199 10841 68 10901 61 8641 55 10953 81 10941 72 9006 930 0 0 0 0 t 0 0 0 0 1079 7871 540 10629 97 10969 66 10967 365 11008 77 10965 81 10951 950 8417 0 0 0 0
oligos_6nt_mkv4_m5_shift6 (oligos_6nt_mkv4_m5)				; positions_6nt_m4 versus oligos_6nt_mkv4_m5; m=26/33; ncol2=16; w=0; offset=5; strand=D; shift=6; score=0.628716; ------gtsTGTGyGTGTsTgt-- ; cor=; Ncor= a 0 0 0 0 0 0 214 180 62 30 40 21 22 21 20 16 41 12 98 13 202 129 0 0 c 0 0 0 0 0 0 294 260 792 62 50 39 43 1077 48 32 62 38 611 57 217 297 0 0 g 0 0 0 0 0 0 895 280 760 38 1580 14 1604 24 1593 23 1556 28 898 67 1041 211 0 0 t 0 0 0 0 0 0 294 977 83 1567 27 1623 28 575 36 1626 38 1619 90 1560 237 1060 0 0
oligos_6nt_mkv4_m2_rc_shift3 (oligos_6nt_mkv4_m2_rc)				; positions_6nt_m4 versus oligos_6nt_mkv4_m2_rc; m=27/33; ncol2=16; w=0; offset=2; strand=R; shift=3; score=0.620183; ---tgkGTGTrTGTGwGtg----- ; cor=; Ncor= a 0 0 0 421 362 158 100 83 79 61 1618 50 69 71 78 840 208 394 410 0 0 0 0 0 c 0 0 0 432 382 215 95 70 38 26 41 50 23 68 33 231 117 379 219 0 0 0 0 0 g 0 0 0 465 1338 1092 2225 94 2331 75 757 70 2376 82 2340 137 1970 351 1513 0 0 0 0 0 t 0 0 0 1178 414 1031 76 2249 48 2334 80 2326 28 2275 45 1288 201 1372 354 0 0 0 0 0
oligos_7nt_mkv5_m4_rc_shift4 (oligos_7nt_mkv5_m4_rc)				; positions_6nt_m4 versus oligos_7nt_mkv5_m4_rc; m=28/33; ncol2=13; w=0; offset=3; strand=R; shift=4; score= 0.5443; ----gtGTGTgTGTGtg------- ; cor=; Ncor= a 0 0 0 0 1279 913 50 29 50 48 740 84 53 42 83 726 1242 0 0 0 0 0 0 0 c 0 0 0 0 1022 1381 57 101 17 96 257 67 42 67 47 1558 663 0 0 0 0 0 0 0 g 0 0 0 0 5541 804 8808 48 8906 99 5812 265 8848 44 8776 794 5506 0 0 0 0 0 0 0 t 0 0 0 0 1185 5929 112 8849 54 8784 2218 8611 84 8874 121 5949 1616 0 0 0 0 0 0 0
dyads_m3_rc_shift2 (dyads_m3_rc)				; positions_6nt_m4 versus dyads_m3_rc; m=29/33; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.537673; --gtGyGTGTGTrTgt-------- ; cor=; Ncor= a 0 0 413 415 154 163 75 76 92 38 88 38 1851 76 439 310 0 0 0 0 0 0 0 0 c 0 0 343 632 135 1901 79 91 46 79 48 56 73 87 308 397 0 0 0 0 0 0 0 0 g 0 0 1815 346 2562 122 2755 58 2769 26 2764 50 931 99 1831 450 0 0 0 0 0 0 0 0 t 0 0 395 1573 115 780 57 2741 59 2823 66 2822 111 2704 388 1809 0 0 0 0 0 0 0 0
dyads_m7_rc_shift2 (dyads_m7_rc)				; positions_6nt_m4 versus dyads_m7_rc; m=30/33; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.529623; --gtrTGTGTGTrTgt-------- ; cor=; Ncor= a 0 0 421 401 1801 97 120 67 150 45 131 47 1848 71 463 319 0 0 0 0 0 0 0 0 c 0 0 391 440 168 78 71 66 35 59 58 65 76 105 287 374 0 0 0 0 0 0 0 0 g 0 0 1694 455 786 89 2647 75 2656 31 2638 58 863 115 1780 455 0 0 0 0 0 0 0 0 t 0 0 405 1615 156 2647 73 2703 70 2776 84 2741 124 2620 381 1763 0 0 0 0 0 0 0 0
oligos_7nt_mkv5_m5_rc_shift5 (oligos_7nt_mkv5_m5_rc)				; positions_6nt_m4 versus oligos_7nt_mkv5_m5_rc; m=31/33; ncol2=14; w=0; offset=4; strand=R; shift=5; score=0.525253; -----tgkGTGTGCGTGtg----- ; cor=; Ncor= a 0 0 0 0 0 501 418 166 38 69 62 55 56 82 45 114 206 388 389 0 0 0 0 0 c 0 0 0 0 0 545 526 155 67 60 21 64 40 2153 48 87 123 595 280 0 0 0 0 0 g 0 0 0 0 0 628 1283 1562 2700 70 2733 45 2718 96 2713 95 2317 359 1722 0 0 0 0 0 t 0 0 0 0 0 1177 624 968 46 2652 35 2687 37 520 45 2555 205 1509 460 0 0 0 0 0
dyads_m9_rc_shift1 (dyads_m9_rc)				; positions_6nt_m4 versus dyads_m9_rc; m=32/33; ncol2=13; w=0; offset=0; strand=R; shift=1; score=0.476706; -tgkGTGTGTATgt---------- ; cor=; Ncor= a 0 391 371 143 66 61 77 50 91 26 1755 47 384 266 0 0 0 0 0 0 0 0 0 0 c 0 440 430 149 65 26 34 36 51 26 45 52 252 318 0 0 0 0 0 0 0 0 0 0 g 0 522 1114 1376 2267 85 2298 72 2255 46 532 85 1452 426 0 0 0 0 0 0 0 0 0 0 t 0 1082 520 767 37 2263 26 2277 38 2337 103 2251 347 1425 0 0 0 0 0 0 0 0 0 0
oligos_7nt_mkv5_m9_rc_shift2 (oligos_7nt_mkv5_m9_rc)				; positions_6nt_m4 versus oligos_7nt_mkv5_m9_rc; m=33/33; ncol2=13; w=0; offset=1; strand=R; shift=2; score=0.442567; --ktTTGTGTsTGtg--------- ; cor=; Ncor= a 0 0 270 323 42 35 26 13 49 15 96 71 140 218 284 0 0 0 0 0 0 0 0 0 c 0 0 324 334 71 49 57 39 68 34 1213 111 183 389 315 0 0 0 0 0 0 0 0 0 g 0 0 796 432 298 36 1761 23 1715 44 472 176 1425 301 845 0 0 0 0 0 0 0 0 0 t 0 0 494 795 1473 1764 40 1809 52 1791 103 1526 136 976 440 0 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m7_shift0 (oligos_7nt_mkv5_m7)				; oligos_7nt_mkv5_m7; m=0 (reference); ncol1=14; shift=0; ncol=14; ctCTCTyTCTCTCt ; Alignment reference a 503 585 161 215 120 150 166 109 121 141 154 241 435 595 c 4268 736 5741 282 5809 301 4049 266 5870 243 5779 444 4387 960 g 471 820 143 252 136 244 156 293 76 286 147 332 524 719 t 1206 4307 403 5699 383 5753 2077 5780 381 5778 368 5431 1102 4174
oligos_7nt_mkv5_m7_shift0 (oligos_7nt_mkv5_m7)				; oligos_7nt_mkv5_m7 versus oligos_7nt_mkv5_m7; m=1/3; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; ctCTCTyTCTCTCt ; cor=; Ncor= a 503 585 161 215 120 150 166 109 121 141 154 241 435 595 c 4268 736 5741 282 5809 301 4049 266 5870 243 5779 444 4387 960 g 471 820 143 252 136 244 156 293 76 286 147 332 524 719 t 1206 4307 403 5699 383 5753 2077 5780 381 5778 368 5431 1102 4174
dyads_m4_rc_shift0 (dyads_m4_rc)				; oligos_7nt_mkv5_m7 versus dyads_m4_rc; m=2/3; ncol2=17; w=0; offset=0; strand=R; shift=0; score=0.80743; CtCTCTCTCTCTCT ; cor=; Ncor= a 534 757 286 458 210 341 149 281 153 314 167 396 205 545 c 5329 751 6323 380 6662 311 6823 285 6812 285 6791 275 6628 387 g 526 1020 274 633 200 571 134 520 148 521 166 569 226 610 t 1251 5112 757 6169 568 6417 534 6554 527 6520 516 6400 581 6098
oligos_7nt_mkv5_m10_rc_shift4 (oligos_7nt_mkv5_m10_rc)				; oligos_7nt_mkv5_m7 versus oligos_7nt_mkv5_m10_rc; m=3/3; ncol2=11; w=0; offset=4; strand=R; shift=4; score=0.470951; ----cyGTCTCTGy ; cor=; Ncor= a 0 0 0 0 272 236 65 39 79 25 69 20 55 227 c 0 0 0 0 665 487 267 85 1613 59 1666 55 207 496 g 0 0 0 0 434 348 1348 80 37 93 33 60 1422 367 t 0 0 0 0 432 732 123 1599 74 1626 35 1668 119 713

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_6nt_m3; m=0 (reference); ncol1=24; shift=1; ncol=25; -acrCACACACACACACACACACac ; Alignment reference a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_6nt_m3 versus positions_6nt_m3; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m8_shift1 (positions_7nt_m8)				; positions_6nt_m3 versus positions_7nt_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 0.9925; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309
positions_7nt_m10_shift1 (positions_7nt_m10)				; positions_6nt_m3 versus positions_7nt_m10; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98916; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_7nt_m7_shift1 (positions_7nt_m7)				; positions_6nt_m3 versus positions_7nt_m7; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.989078; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292
positions_7nt_m4_shift1 (positions_7nt_m4)				; positions_6nt_m3 versus positions_7nt_m4; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98741; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_6nt_m3 versus positions_7nt_m5; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98513; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_6nt_m3 versus positions_7nt_m2; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.98506; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_6nt_m5_shift1 (positions_6nt_m5)				; positions_6nt_m3 versus positions_6nt_m5; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984404; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_6nt_m10_shift1 (positions_6nt_m10)				; positions_6nt_m3 versus positions_6nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984008; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468
positions_6nt_m6_shift1 (positions_6nt_m6)				; positions_6nt_m3 versus positions_6nt_m6; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.974865; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; positions_6nt_m3 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.942372; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0
positions_7nt_m3_shift2 (positions_7nt_m3)				; positions_6nt_m3 versus positions_7nt_m3; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914166; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_6nt_m9_shift2 (positions_6nt_m9)				; positions_6nt_m3 versus positions_6nt_m9; m=13/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.913377; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
positions_6nt_m1_shift2 (positions_6nt_m1)				; positions_6nt_m3 versus positions_6nt_m1; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.912376; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_6nt_m3 versus positions_6nt_m2; m=15/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.911068; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
dyads_m1_shift2 (dyads_m1)				; positions_6nt_m3 versus dyads_m1; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.91034; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_7nt_m9_shift2 (positions_7nt_m9)				; positions_6nt_m3 versus positions_7nt_m9; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910025; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
dyads_m8_shift2 (dyads_m8)				; positions_6nt_m3 versus dyads_m8; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909791; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
positions_6nt_m8_shift0 (positions_6nt_m8)				; positions_6nt_m3 versus positions_6nt_m8; m=19/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909589; caCACACACACACACACACACACa- ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 0 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 0 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 0 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160 0
positions_7nt_m6_shift0 (positions_7nt_m6)				; positions_6nt_m3 versus positions_7nt_m6; m=20/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.909138; caCACACACACACACACACACACa- ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 0 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 0 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 0 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504 0
positions_7nt_m1_shift0 (positions_7nt_m1)				; positions_6nt_m3 versus positions_7nt_m1; m=21/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.907037; cacACACACACACACACACACACa- ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 0 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 0 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 0 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892 0
positions_6nt_m7_shift0 (positions_6nt_m7)				; positions_6nt_m3 versus positions_6nt_m7; m=22/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.906781; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0
dyads_m2_shift4 (dyads_m2)				; positions_6nt_m3 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=4; score=0.801821; ----camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0
dyads_m10_shift7 (dyads_m10)				; positions_6nt_m3 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=7; score=0.735604; -------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)				; positions_6nt_m3 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.664025; ---------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; positions_6nt_m3 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=7; strand=D; shift=8; score=0.604861; --------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0
oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)				; positions_6nt_m3 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.604324; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214
oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)				; positions_6nt_m3 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=9; strand=D; shift=10; score=0.529128; ----------caCACAcACACac-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0
dyads_m7_shift11 (dyads_m7)				; positions_6nt_m3 versus dyads_m7; m=29/33; ncol2=14; w=0; offset=10; strand=D; shift=11; score=0.514408; -----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m3_shift7 (dyads_m3)				; positions_6nt_m3 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.507186; -------acAyACACACrCac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 c 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 g 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 t 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)				; positions_6nt_m3 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.489578; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0
dyads_m9_shift11 (dyads_m9)				; positions_6nt_m3 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=10; strand=D; shift=11; score=0.45217; -----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0
oligos_7nt_mkv5_m9_shift12 (oligos_7nt_mkv5_m9)				; positions_6nt_m3 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=12; score=0.437995; ------------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m5_shift7 (oligos_6nt_mkv4_m5)				; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=16; shift=7; ncol=23; -------gtsTGTGyGTGTsTgt ; Alignment reference a 0 0 0 0 0 0 0 214 180 62 30 40 21 22 21 20 16 41 12 98 13 202 129 c 0 0 0 0 0 0 0 294 260 792 62 50 39 43 1077 48 32 62 38 611 57 217 297 g 0 0 0 0 0 0 0 895 280 760 38 1580 14 1604 24 1593 23 1556 28 898 67 1041 211 t 0 0 0 0 0 0 0 294 977 83 1567 27 1623 28 575 36 1626 38 1619 90 1560 237 1060
oligos_6nt_mkv4_m5_shift7 (oligos_6nt_mkv4_m5)				; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m5; m=1/33; ncol2=16; w=0; offset=0; strand=D; shift=7; score= 1; -------gtsTGTGyGTGTsTgt ; cor=; Ncor= a 0 0 0 0 0 0 0 214 180 62 30 40 21 22 21 20 16 41 12 98 13 202 129 c 0 0 0 0 0 0 0 294 260 792 62 50 39 43 1077 48 32 62 38 611 57 217 297 g 0 0 0 0 0 0 0 895 280 760 38 1580 14 1604 24 1593 23 1556 28 898 67 1041 211 t 0 0 0 0 0 0 0 294 977 83 1567 27 1623 28 575 36 1626 38 1619 90 1560 237 1060
oligos_7nt_mkv5_m8_rc_shift7 (oligos_7nt_mkv5_m8_rc)				; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m8_rc; m=2/33; ncol2=16; w=0; offset=0; strand=R; shift=7; score=0.912141; -------GTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1224 929 839 201 176 67 180 73 1978 55 133 73 155 65 855 646 c 0 0 0 0 0 0 0 1137 1414 1684 216 131 141 98 144 261 127 82 126 68 157 434 1252 g 0 0 0 0 0 0 0 7805 1031 8182 199 10841 68 10901 61 8641 55 10953 81 10941 72 9006 930 t 0 0 0 0 0 0 0 1079 7871 540 10629 97 10969 66 10967 365 11008 77 10965 81 10951 950 8417
dyads_m10_rc_shift5 (dyads_m10_rc)				; oligos_6nt_mkv4_m5 versus dyads_m10_rc; m=3/33; ncol2=18; w=-2; offset=-2; strand=R; shift=5; score=0.802024; -----GTGyGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 1123 902 380 480 221 201 229 125 245 110 261 88 252 141 2074 220 1055 739 c 0 0 0 0 0 877 1578 284 2725 180 355 87 269 69 179 64 171 86 208 286 342 600 1101 g 0 0 0 0 0 7303 744 9327 320 9671 113 9764 42 9807 58 9760 75 9753 129 7314 282 7513 1135 t 0 0 0 0 0 910 6989 222 6688 141 9544 133 9777 92 9866 128 9879 122 9735 539 9369 1045 7238
dyads_m2_rc_shift4 (dyads_m2_rc)				; oligos_6nt_mkv4_m5 versus dyads_m2_rc; m=4/33; ncol2=20; w=-3; offset=-3; strand=R; shift=4; score=0.731421; ----tgtGTGTGTGTGTGTGTkt ; cor=; Ncor= a 0 0 0 0 816 822 1308 144 117 69 74 92 54 121 200 100 73 58 58 114 113 414 477 c 0 0 0 0 1111 639 729 100 141 32 170 29 110 40 1298 50 104 40 204 44 203 227 801 g 0 0 0 0 760 3514 357 5174 78 5404 26 5384 14 5322 80 5333 28 5358 40 5234 170 3227 891 t 0 0 0 0 2859 571 3152 128 5210 41 5276 41 5368 63 3968 63 5341 90 5244 154 5060 1678 3377
dyads_m7_rc_shift7 (dyads_m7_rc)				; oligos_6nt_mkv4_m5 versus dyads_m7_rc; m=5/33; ncol2=14; w=0; offset=0; strand=R; shift=7; score=0.714257; -------gtrTGTGTGTrTgt-- ; cor=; Ncor= a 0 0 0 0 0 0 0 421 401 1801 97 120 67 150 45 131 47 1848 71 463 319 0 0 c 0 0 0 0 0 0 0 391 440 168 78 71 66 35 59 58 65 76 105 287 374 0 0 g 0 0 0 0 0 0 0 1694 455 786 89 2647 75 2656 31 2638 58 863 115 1780 455 0 0 t 0 0 0 0 0 0 0 405 1615 156 2647 73 2703 70 2776 84 2741 124 2620 381 1763 0 0
oligos_7nt_mkv5_m4_rc_shift9 (oligos_7nt_mkv5_m4_rc)				; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m4_rc; m=6/33; ncol2=13; w=0; offset=2; strand=R; shift=9; score=0.711097; ---------gtGTGTgTGTGtg- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1279 913 50 29 50 48 740 84 53 42 83 726 1242 0 c 0 0 0 0 0 0 0 0 0 1022 1381 57 101 17 96 257 67 42 67 47 1558 663 0 g 0 0 0 0 0 0 0 0 0 5541 804 8808 48 8906 99 5812 265 8848 44 8776 794 5506 0 t 0 0 0 0 0 0 0 0 0 1185 5929 112 8849 54 8784 2218 8611 84 8874 121 5949 1616 0
dyads_m3_rc_shift9 (dyads_m3_rc)				; oligos_6nt_mkv4_m5 versus dyads_m3_rc; m=7/33; ncol2=14; w=0; offset=2; strand=R; shift=9; score=0.706844; ---------gtGyGTGTGTrTgt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 413 415 154 163 75 76 92 38 88 38 1851 76 439 310 c 0 0 0 0 0 0 0 0 0 343 632 135 1901 79 91 46 79 48 56 73 87 308 397 g 0 0 0 0 0 0 0 0 0 1815 346 2562 122 2755 58 2769 26 2764 50 931 99 1831 450 t 0 0 0 0 0 0 0 0 0 395 1573 115 780 57 2741 59 2823 66 2822 111 2704 388 1809
oligos_6nt_mkv4_m2_rc_shift6 (oligos_6nt_mkv4_m2_rc)				; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m2_rc; m=8/33; ncol2=16; w=-1; offset=-1; strand=R; shift=6; score=0.697932; ------tgkGTGTrTGTGwGtg- ; cor=; Ncor= a 0 0 0 0 0 0 421 362 158 100 83 79 61 1618 50 69 71 78 840 208 394 410 0 c 0 0 0 0 0 0 432 382 215 95 70 38 26 41 50 23 68 33 231 117 379 219 0 g 0 0 0 0 0 0 465 1338 1092 2225 94 2331 75 757 70 2376 82 2340 137 1970 351 1513 0 t 0 0 0 0 0 0 1178 414 1031 76 2249 48 2334 80 2326 28 2275 45 1288 201 1372 354 0
oligos_7nt_mkv5_m5_rc_shift6 (oligos_7nt_mkv5_m5_rc)				; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m5_rc; m=9/33; ncol2=14; w=-1; offset=-1; strand=R; shift=6; score=0.694767; ------tgkGTGTGCGTGtg--- ; cor=; Ncor= a 0 0 0 0 0 0 501 418 166 38 69 62 55 56 82 45 114 206 388 389 0 0 0 c 0 0 0 0 0 0 545 526 155 67 60 21 64 40 2153 48 87 123 595 280 0 0 0 g 0 0 0 0 0 0 628 1283 1562 2700 70 2733 45 2718 96 2713 95 2317 359 1722 0 0 0 t 0 0 0 0 0 0 1177 624 968 46 2652 35 2687 37 520 45 2555 205 1509 460 0 0 0
positions_6nt_m4_shift2 (positions_6nt_m4)				; oligos_6nt_mkv4_m5 versus positions_6nt_m4; m=10/33; ncol2=23; w=-5; offset=-5; strand=D; shift=2; score=0.628716; --tgTGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 1869 1940 1481 1344 1840 623 372 436 277 498 231 457 573 405 426 408 499 528 1543 1258 1354 c 0 0 2802 1645 2135 1065 1900 370 599 151 686 134 463 155 2637 178 555 155 837 257 1774 699 1813 g 0 0 1953 10414 1328 12216 827 14220 213 14801 85 14762 73 14723 251 14711 140 14693 207 14293 911 12206 1415 t 0 0 8945 1570 10625 944 11002 356 14385 181 14521 175 14802 234 12108 275 14448 313 14026 491 11341 1406 10987
dyads_m9_rc_shift10 (dyads_m9_rc)				; oligos_6nt_mkv4_m5 versus dyads_m9_rc; m=11/33; ncol2=13; w=0; offset=3; strand=R; shift=10; score=0.627056; ----------tgkGTGTGTATgt ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 391 371 143 66 61 77 50 91 26 1755 47 384 266 c 0 0 0 0 0 0 0 0 0 0 440 430 149 65 26 34 36 51 26 45 52 252 318 g 0 0 0 0 0 0 0 0 0 0 522 1114 1376 2267 85 2298 72 2255 46 532 85 1452 426 t 0 0 0 0 0 0 0 0 0 0 1082 520 767 37 2263 26 2277 38 2337 103 2251 347 1425
positions_6nt_m6_rc_shift5 (positions_6nt_m6_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m6_rc; m=12/33; ncol2=24; w=-2; offset=-2; strand=R; shift=5; score=0.61447; -----gtGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 1244 1142 820 1256 194 189 204 139 193 331 227 127 141 140 223 178 300 631 c 0 0 0 0 0 1023 1499 660 1051 129 337 54 217 60 1952 105 195 49 300 61 256 151 1076 g 0 0 0 0 0 6677 1066 7825 511 9519 85 9636 49 9623 131 9499 64 9641 71 9522 169 9166 1286 t 0 0 0 0 0 1014 6251 653 7140 116 9347 64 9553 82 7544 127 9572 127 9447 152 9355 341 6965
positions_6nt_m5_rc_shift7 (positions_6nt_m5_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m5_rc; m=13/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.614194; -------GTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 782 585 250 169 221 115 249 218 207 79 148 62 142 76 1024 106 c 0 0 0 0 0 0 0 669 905 162 347 81 278 61 1330 93 172 47 195 55 168 190 189 g 0 0 0 0 0 0 0 5039 524 6581 111 6732 58 6728 103 6720 39 6841 34 6839 95 5545 113 t 0 0 0 0 0 0 0 629 5105 126 6492 85 6668 81 5468 99 6829 83 6828 83 6780 360 6711
positions_7nt_m8_rc_shift7 (positions_7nt_m8_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m8_rc; m=14/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.614008; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1309 1016 546 385 471 280 509 393 445 194 325 148 296 171 1345 221 c 0 0 0 0 0 0 0 1196 1646 454 873 216 671 203 2065 208 416 123 420 121 309 306 382 g 0 0 0 0 0 0 0 7237 883 9432 253 9861 173 9898 222 9967 77 10189 64 10254 128 8652 155 t 0 0 0 0 0 0 0 1063 7260 373 9294 257 9681 195 8125 185 10118 168 10173 134 10197 502 10047
positions_6nt_m10_rc_shift3 (positions_6nt_m10_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m10_rc; m=15/33; ncol2=24; w=-4; offset=-4; strand=R; shift=3; score=0.61227; ---gtGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 1468 1221 1246 930 1127 343 383 185 371 139 416 330 329 162 279 156 326 191 1835 426 c 0 0 0 1480 2000 1142 1444 1280 536 220 513 135 387 138 2051 159 316 109 413 135 387 411 769 g 0 0 0 7303 1307 8314 953 8556 287 10912 124 11035 64 11004 173 11051 68 11129 86 11008 183 8621 510 t 0 0 0 1442 7165 991 8366 730 10527 178 10871 152 11103 135 9139 154 11147 176 11038 224 10932 826 9988
positions_7nt_m4_rc_shift5 (positions_7nt_m4_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m4_rc; m=16/33; ncol2=24; w=-2; offset=-2; strand=R; shift=5; score=0.612207; -----gtgTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 1282 1138 1133 484 448 286 450 198 459 334 405 158 274 144 303 173 1329 202 c 0 0 0 0 0 1302 1605 965 665 322 669 188 500 185 1863 186 333 121 377 120 292 320 362 g 0 0 0 0 0 6419 1148 6894 448 9195 179 9390 117 9408 184 9478 70 9669 64 9637 136 8039 174 t 0 0 0 0 0 1215 6327 1226 8621 253 9084 190 9403 166 7837 149 9657 154 9633 158 9617 530 9480
positions_6nt_m8_rc_shift6 (positions_6nt_m8_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m8_rc; m=17/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.611056; ------tGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1160 1239 510 493 307 475 212 495 354 427 172 302 156 329 193 1372 241 c 0 0 0 0 0 0 1801 1073 784 346 754 203 565 193 1914 194 382 129 432 140 365 347 451 g 0 0 0 0 0 0 1158 7963 440 10108 186 10324 113 10341 187 10408 74 10602 69 10552 157 8887 197 t 0 0 0 0 0 0 7092 936 9477 264 9964 209 10321 182 8756 182 10583 178 10554 190 10496 605 10322
positions_7nt_m6_rc_shift6 (positions_7nt_m6_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m6_rc; m=18/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.60986; ------tGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1504 1590 684 642 371 606 268 567 468 569 278 432 231 424 258 528 399 c 0 0 0 0 0 0 2360 1342 1092 414 974 260 731 241 2462 263 563 181 628 188 559 253 743 g 0 0 0 0 0 0 1533 10480 562 13243 217 13515 138 13581 248 13557 115 13783 94 13684 179 13318 452 t 0 0 0 0 0 0 9253 1238 12312 351 13088 269 13513 261 11472 261 13694 254 13697 354 13654 551 13056
positions_7nt_m5_rc_shift3 (positions_7nt_m5_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m5_rc; m=19/33; ncol2=24; w=-4; offset=-4; strand=R; shift=3; score=0.60839; ---gtGTGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 1011 789 599 307 1563 172 300 127 269 81 238 256 241 119 201 136 239 136 288 218 c 0 0 0 986 1294 508 531 396 369 119 314 94 241 85 1413 98 242 83 316 98 320 158 409 g 0 0 0 6003 774 7395 299 6562 154 8377 70 8441 39 8486 116 8442 55 8461 51 8348 133 8101 323 t 0 0 0 896 6039 394 7759 375 8201 100 8385 92 8535 87 7111 115 8480 151 8393 211 8307 349 7946
positions_7nt_m2_rc_shift1 (positions_7nt_m2_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m2_rc; m=20/33; ncol2=24; w=-6; offset=-6; strand=R; shift=1; score=0.608155; -GTGTGTGTGTGTGTGTGTGTgT ; cor=; Ncor= a 0 899 703 349 190 305 147 1345 111 229 100 225 89 208 236 239 132 238 156 292 214 1599 464 c 0 793 1117 245 392 126 368 236 235 97 281 63 209 63 1247 108 237 90 333 131 419 328 639 g 0 5681 572 7206 134 7486 123 6214 74 7661 59 7704 42 7707 132 7574 81 7560 116 7405 252 5476 632 t 0 696 5677 269 7353 152 7431 274 7649 82 7629 77 7729 91 6454 148 7619 181 7464 241 7184 666 6334
positions_7nt_m1_rc_shift0 (positions_7nt_m1_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m1_rc; m=21/33; ncol2=24; w=-7; offset=-7; strand=R; shift=0; score=0.604415; tGTGTGTGTGTGTGTGTGTGTgt ; cor=; Ncor= a 892 977 464 570 236 1546 178 304 117 245 87 227 100 223 278 223 147 243 180 340 291 775 771 c 1393 933 787 390 443 356 357 121 220 78 246 55 228 80 1413 110 307 105 475 165 497 380 1135 g 954 6223 474 7636 242 6672 147 8367 63 8506 41 8541 42 8486 145 8387 77 8297 155 8011 420 5720 1210 t 5670 776 7184 313 7988 335 8227 117 8509 80 8535 86 8539 120 7073 189 8378 264 8099 393 7701 2034 5793
positions_6nt_m3_rc_shift7 (positions_6nt_m3_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m3_rc; m=22/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.604324; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 763 643 617 213 204 96 196 80 1028 73 143 59 134 66 389 98 c 0 0 0 0 0 0 0 772 882 746 252 138 182 96 181 197 148 78 121 42 120 158 136 g 0 0 0 0 0 0 0 4311 642 4713 184 6030 84 6106 60 5061 49 6196 25 6244 58 5226 94 t 0 0 0 0 0 0 0 637 4316 407 5834 111 6121 85 6162 197 6213 66 6278 63 6239 710 6155
positions_6nt_m9_rc_shift6 (positions_6nt_m9_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m9_rc; m=23/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.603533; ------tgTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1029 1214 831 1037 413 406 182 352 131 382 137 685 123 250 122 286 162 c 0 0 0 0 0 0 1728 1164 1238 1235 525 272 354 167 318 155 308 275 213 118 186 119 267 g 0 0 0 0 0 0 1189 6407 859 6900 314 8948 146 9128 71 9123 103 8031 103 9295 89 9220 128 t 0 0 0 0 0 0 5864 1025 6882 638 8558 184 9128 163 9290 150 9262 819 9371 147 9413 185 9253
positions_7nt_m10_rc_shift7 (positions_7nt_m10_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m10_rc; m=24/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.602339; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1340 1101 1137 525 475 259 434 157 403 186 742 165 281 157 310 190 c 0 0 0 0 0 0 0 1328 1683 1253 667 330 484 199 417 176 417 331 268 129 361 117 327 g 0 0 0 0 0 0 0 6806 1177 7432 432 9615 201 9842 105 9932 135 8714 125 10130 69 10084 83 t 0 0 0 0 0 0 0 1199 6712 851 9049 253 9729 198 9994 162 9935 886 10115 133 10086 162 10073
positions_6nt_m1_rc_shift6 (positions_6nt_m1_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m1_rc; m=25/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.601289; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1111 1256 1027 1006 336 335 138 322 130 1646 160 286 107 228 68 251 154 c 0 0 0 0 0 0 1827 1211 1449 814 422 201 272 128 270 304 255 102 181 87 181 80 260 g 0 0 0 0 0 0 1360 6633 1249 7183 313 9532 107 9678 117 7946 85 9760 60 9816 64 9728 189 t 0 0 0 0 0 0 5953 1151 6526 1248 9180 183 9734 123 9734 355 9751 103 9903 120 9938 192 9648
dyads_m1_rc_shift6 (dyads_m1_rc)				; oligos_6nt_mkv4_m5 versus dyads_m1_rc; m=26/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.600475; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1761 1900 1262 1017 719 776 416 710 305 619 265 559 286 519 303 528 375 c 0 0 0 0 0 0 2869 1699 3714 799 1375 453 1076 316 778 250 646 215 577 195 601 199 840 g 0 0 0 0 0 0 1821 10161 1103 12789 530 13607 285 13915 162 14125 120 14219 116 14223 154 14154 248 t 0 0 0 0 0 0 8820 1511 9192 666 12647 435 13494 330 14026 277 14240 278 14292 334 14213 390 13808
positions_7nt_m3_rc_shift6 (positions_7nt_m3_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m3_rc; m=27/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.600368; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1213 1267 1364 527 362 429 209 395 214 1431 168 300 148 297 147 315 388 c 0 0 0 0 0 0 1773 1184 1323 447 572 191 424 179 460 323 291 112 315 71 274 94 1714 g 0 0 0 0 0 0 1215 6578 783 8727 267 9198 142 9300 135 7899 104 9514 68 9569 57 9454 230 t 0 0 0 0 0 0 5839 1011 6570 339 8839 222 9265 166 9231 387 9477 114 9509 103 9562 177 7708
dyads_m8_rc_shift6 (dyads_m8_rc)				; oligos_6nt_mkv4_m5 versus dyads_m8_rc; m=28/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.600145; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1765 1875 1252 1018 723 819 410 710 289 645 246 574 282 550 300 555 332 c 0 0 0 0 0 0 2869 1726 3745 819 1373 462 1093 313 745 262 637 209 557 197 592 223 649 g 0 0 0 0 0 0 1857 10264 1125 12885 530 13684 266 14072 170 14210 129 14354 122 14348 177 14205 246 t 0 0 0 0 0 0 8918 1544 9287 687 12783 444 13640 314 14205 292 14397 272 14448 314 14340 426 14182
positions_7nt_m9_rc_shift6 (positions_7nt_m9_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m9_rc; m=29/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.598842; ------tgtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 1341 1371 974 539 328 416 166 399 165 1676 178 322 147 309 150 367 239 c 0 0 0 0 0 0 1995 1266 1536 441 537 207 372 170 388 323 340 119 246 118 299 133 419 g 0 0 0 0 0 0 1380 8048 1343 10512 246 11039 129 11169 107 9462 96 11287 78 11259 104 11115 279 t 0 0 0 0 0 0 7165 1196 8028 389 10770 219 11214 143 11221 420 11267 153 11410 195 11328 266 10944
oligos_7nt_mkv5_m9_rc_shift7 (oligos_7nt_mkv5_m9_rc)				; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m9_rc; m=30/33; ncol2=13; w=0; offset=0; strand=R; shift=7; score=0.59826; -------ktTTGTGTsTGtg--- ; cor=; Ncor= a 0 0 0 0 0 0 0 270 323 42 35 26 13 49 15 96 71 140 218 284 0 0 0 c 0 0 0 0 0 0 0 324 334 71 49 57 39 68 34 1213 111 183 389 315 0 0 0 g 0 0 0 0 0 0 0 796 432 298 36 1761 23 1715 44 472 176 1425 301 845 0 0 0 t 0 0 0 0 0 0 0 494 795 1473 1764 40 1809 52 1791 103 1526 136 976 440 0 0 0
positions_7nt_m7_rc_shift7 (positions_7nt_m7_rc)				; oligos_6nt_mkv4_m5 versus positions_7nt_m7_rc; m=31/33; ncol2=24; w=0; offset=0; strand=R; shift=7; score=0.595972; -------gtGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 0 1292 1102 651 494 600 539 530 262 437 164 355 164 1356 186 379 210 c 0 0 0 0 0 0 0 1313 2014 513 974 303 2504 268 566 151 521 148 313 258 346 140 312 g 0 0 0 0 0 0 0 7524 985 9636 353 10067 348 10237 139 10478 73 10644 124 9231 118 10557 121 t 0 0 0 0 0 0 0 1139 7167 468 9447 298 7877 233 10301 202 10510 121 10667 423 10618 192 10625
positions_6nt_m7_rc_shift6 (positions_6nt_m7_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m7_rc; m=32/33; ncol2=24; w=-1; offset=-1; strand=R; shift=6; score=0.594245; ------TGTGTGTGTGTGTGTGT ; cor=; Ncor= a 0 0 0 0 0 0 446 534 115 153 85 165 153 132 59 96 38 114 47 899 65 110 76 c 0 0 0 0 0 0 726 357 232 59 174 50 1094 63 122 36 138 36 99 127 136 73 160 g 0 0 0 0 0 0 485 4753 109 5709 54 5722 73 5736 31 5806 25 5793 62 4694 79 5668 114 t 0 0 0 0 0 0 4340 353 5541 76 5684 60 4677 66 5785 59 5796 54 5789 277 5717 146 5647
positions_6nt_m2_rc_shift3 (positions_6nt_m2_rc)				; oligos_6nt_mkv4_m5 versus positions_6nt_m2_rc; m=33/33; ncol2=24; w=-4; offset=-4; strand=R; shift=3; score=0.591549; ---gtGtGTGTGTGyGTGTGtkk ; cor=; Ncor= a 0 0 0 690 657 490 890 143 110 100 65 114 72 125 230 106 117 146 140 223 461 704 653 c 0 0 0 586 904 386 609 91 132 34 173 33 113 57 1466 67 151 56 280 133 830 428 682 g 0 0 0 3623 638 4284 347 5169 63 5331 32 5314 30 5239 121 5231 74 5173 124 4839 1221 2553 1977 t 0 0 0 615 3315 354 3668 111 5209 49 5244 53 5299 93 3697 110 5172 139 4970 319 3002 1829 2202

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m3_shift10 (dyads_m3)				; dyads_m3; m=0 (reference); ncol1=14; shift=10; ncol=24; ----------acAyACACACrCac ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
dyads_m3_shift10 (dyads_m3)				; dyads_m3 versus dyads_m3; m=1/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score= 1; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
dyads_m7_shift10 (dyads_m7)				; dyads_m3 versus dyads_m7; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=10; score=0.875018; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m9_shift10 (dyads_m9)				; dyads_m3 versus dyads_m9; m=3/33; ncol2=13; w=0; offset=0; strand=D; shift=10; score=0.856093; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)				; dyads_m3 versus oligos_7nt_mkv5_m4; m=4/33; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.780549; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
oligos_7nt_mkv5_m8_shift10 (oligos_7nt_mkv5_m8)				; dyads_m3 versus oligos_7nt_mkv5_m8; m=5/33; ncol2=16; w=0; offset=0; strand=D; shift=10; score=0.755625; ----------ACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 c 0 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 g 0 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 t 0 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839
oligos_6nt_mkv4_m5_rc_shift10 (oligos_6nt_mkv4_m5_rc)				; dyads_m3 versus oligos_6nt_mkv4_m5_rc; m=6/33; ncol2=16; w=0; offset=0; strand=R; shift=10; score=0.706844; ----------acAsACACrCACAs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 c 0 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 g 0 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 t 0 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62
dyads_m10_shift6 (dyads_m10)				; dyads_m3 versus dyads_m10; m=7/33; ncol2=18; w=-4; offset=-4; strand=D; shift=6; score=0.70574; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)				; dyads_m3 versus oligos_6nt_mkv4_m2; m=8/33; ncol2=16; w=-1; offset=-1; strand=D; shift=9; score=0.673448; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362
oligos_7nt_mkv5_m5_shift9 (oligos_7nt_mkv5_m5)				; dyads_m3 versus oligos_7nt_mkv5_m5; m=9/33; ncol2=14; w=-1; offset=-1; strand=D; shift=9; score=0.650552; ---------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0
oligos_7nt_mkv5_m9_shift9 (oligos_7nt_mkv5_m9)				; dyads_m3 versus oligos_7nt_mkv5_m9; m=10/33; ncol2=13; w=-1; offset=-1; strand=D; shift=9; score=0.610056; ---------caCAsACACAAam-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 c 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 g 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 t 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0
dyads_m2_shift5 (dyads_m2)				; dyads_m3 versus dyads_m2; m=11/33; ncol2=20; w=-5; offset=-5; strand=D; shift=5; score=0.602203; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; dyads_m3 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=-8; offset=-8; strand=R; shift=2; score=0.537673; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940
positions_7nt_m7_shift2 (positions_7nt_m7)				; dyads_m3 versus positions_7nt_m7; m=13/33; ncol2=24; w=-8; offset=-8; strand=D; shift=2; score=0.530209; --acaCACACACACACACACACAC ; cor=; Ncor= a 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 c 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 g 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 t 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651
positions_6nt_m10_shift8 (positions_6nt_m10)				; dyads_m3 versus positions_6nt_m10; m=14/33; ncol2=24; w=-2; offset=-2; strand=D; shift=8; score=0.529293; --------aCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 c 0 0 0 0 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 g 0 0 0 0 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 t 0 0 0 0 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371
positions_6nt_m5_shift4 (positions_6nt_m5)				; dyads_m3 versus positions_6nt_m5; m=15/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.528916; ----acamACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 c 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 g 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 t 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221
positions_6nt_m7_shift3 (positions_6nt_m7)				; dyads_m3 versus positions_6nt_m7; m=16/33; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.528643; ---cacamACACACACACACACAC ; cor=; Ncor= a 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 c 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 g 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 t 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153
positions_7nt_m2_shift10 (positions_7nt_m2)				; dyads_m3 versus positions_7nt_m2; m=17/33; ncol2=24; w=0; offset=0; strand=D; shift=10; score=0.527972; ----------aCAcACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 c 0 0 0 0 0 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 g 0 0 0 0 0 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 t 0 0 0 0 0 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225
positions_7nt_m8_shift4 (positions_7nt_m8)				; dyads_m3 versus positions_7nt_m8; m=18/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.527909; ----acaCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 c 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 g 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 t 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471
positions_7nt_m4_shift6 (positions_7nt_m4)				; dyads_m3 versus positions_7nt_m4; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=6; score=0.527383; ------aCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 c 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 g 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 t 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450
positions_6nt_m8_shift5 (positions_6nt_m8)				; dyads_m3 versus positions_6nt_m8; m=20/33; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.525981; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 c 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 g 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 t 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475
positions_7nt_m6_shift5 (positions_7nt_m6)				; dyads_m3 versus positions_7nt_m6; m=21/33; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.519683; -----caCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 c 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 g 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 t 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606
positions_7nt_m5_shift8 (positions_7nt_m5)				; dyads_m3 versus positions_7nt_m5; m=22/33; ncol2=24; w=-2; offset=-2; strand=D; shift=8; score=0.518182; --------acAcACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 c 0 0 0 0 0 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 g 0 0 0 0 0 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 t 0 0 0 0 0 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269
positions_6nt_m6_shift6 (positions_6nt_m6)				; dyads_m3 versus positions_6nt_m6; m=23/33; ncol2=24; w=-4; offset=-4; strand=D; shift=6; score=0.515616; ------acaCacACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 c 0 0 0 0 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 g 0 0 0 0 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 t 0 0 0 0 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204
positions_7nt_m10_shift0 (positions_7nt_m10)				; dyads_m3 versus positions_7nt_m10; m=24/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.514275; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
dyads_m1_shift1 (dyads_m1)				; dyads_m3 versus dyads_m1; m=25/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.51351; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
dyads_m8_shift1 (dyads_m8)				; dyads_m3 versus dyads_m8; m=26/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.513508; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
positions_6nt_m9_shift1 (positions_6nt_m9)				; dyads_m3 versus positions_6nt_m9; m=27/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.513488; -cACACACACACACACACACACAc ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
positions_6nt_m2_shift0 (positions_6nt_m2)				; dyads_m3 versus positions_6nt_m2; m=28/33; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.512071; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_6nt_m1_shift7 (positions_6nt_m1)				; dyads_m3 versus positions_6nt_m1; m=29/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.509644; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 c 0 0 0 0 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 g 0 0 0 0 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 t 0 0 0 0 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322
positions_7nt_m9_shift7 (positions_7nt_m9)				; dyads_m3 versus positions_7nt_m9; m=30/33; ncol2=24; w=-3; offset=-3; strand=D; shift=7; score=0.50956; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 c 0 0 0 0 0 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 g 0 0 0 0 0 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 t 0 0 0 0 0 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399
positions_6nt_m3_shift4 (positions_6nt_m3)				; dyads_m3 versus positions_6nt_m3; m=31/33; ncol2=24; w=-6; offset=-6; strand=D; shift=4; score=0.507186; ----acrCACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 c 0 0 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 g 0 0 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 t 0 0 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204
positions_7nt_m3_shift1 (positions_7nt_m3)				; dyads_m3 versus positions_7nt_m3; m=32/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.506723; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_7nt_m1_shift1 (positions_7nt_m1)				; dyads_m3 versus positions_7nt_m1; m=33/33; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.506059; -cacACACACACACACACACACAC ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=13; shift=11; ncol=24; -----------caCACAcACACac ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m4; m=1/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score= 1; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
oligos_7nt_mkv5_m5_shift11 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m5; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=11; score=0.799822; -----------caCACGCACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 c 0 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 g 0 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 t 0 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418
oligos_7nt_mkv5_m8_shift10 (oligos_7nt_mkv5_m8)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m8; m=3/33; ncol2=16; w=-1; offset=-1; strand=D; shift=10; score=0.793847; ----------ACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 c 0 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 g 0 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 t 0 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839
dyads_m7_shift10 (dyads_m7)				; oligos_7nt_mkv5_m4 versus dyads_m7; m=4/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.781989; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m3_shift10 (dyads_m3)				; oligos_7nt_mkv5_m4 versus dyads_m3; m=5/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.780549; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m9; m=6/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score=0.779584; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270
oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)				; oligos_7nt_mkv5_m4 versus oligos_6nt_mkv4_m2; m=7/33; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.758749; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362
dyads_m9_shift12 (dyads_m9)				; oligos_7nt_mkv5_m4 versus dyads_m9; m=8/33; ncol2=13; w=0; offset=1; strand=D; shift=12; score=0.726857; ------------acATACACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371
oligos_6nt_mkv4_m5_rc_shift10 (oligos_6nt_mkv4_m5_rc)				; oligos_7nt_mkv5_m4 versus oligos_6nt_mkv4_m5_rc; m=9/33; ncol2=16; w=-1; offset=-1; strand=R; shift=10; score=0.711097; ----------acAsACACrCACAs ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 c 0 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 g 0 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 t 0 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62
dyads_m10_shift8 (dyads_m10)				; oligos_7nt_mkv5_m4 versus dyads_m10; m=10/33; ncol2=18; w=-3; offset=-3; strand=D; shift=8; score=0.701278; --------ACACACACACACACrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 c 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 g 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 t 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380
dyads_m2_shift5 (dyads_m2)				; oligos_7nt_mkv5_m4 versus dyads_m2; m=11/33; ncol2=20; w=-6; offset=-6; strand=D; shift=5; score=0.621585; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822
positions_6nt_m4_rc_shift4 (positions_6nt_m4_rc)				; oligos_7nt_mkv5_m4 versus positions_6nt_m4_rc; m=12/33; ncol2=23; w=-7; offset=-7; strand=R; shift=4; score= 0.5443; ----acACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 c 0 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 g 0 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 t 0 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344
positions_6nt_m9_shift11 (positions_6nt_m9)				; oligos_7nt_mkv5_m4 versus positions_6nt_m9; m=13/33; ncol2=24; w=0; offset=0; strand=D; shift=11; score=0.530419; -----------cACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 c 0 0 0 0 0 0 0 0 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 g 0 0 0 0 0 0 0 0 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 t 0 0 0 0 0 0 0 0 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685
positions_6nt_m3_shift2 (positions_6nt_m3)				; oligos_7nt_mkv5_m4 versus positions_6nt_m3; m=14/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.529128; --acrCACACACACACACACACAC ; cor=; Ncor= a 0 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 c 0 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 g 0 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 t 0 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617
positions_6nt_m5_shift8 (positions_6nt_m5)				; oligos_7nt_mkv5_m4 versus positions_6nt_m5; m=15/33; ncol2=24; w=-3; offset=-3; strand=D; shift=8; score=0.526625; --------acamACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 c 0 0 0 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 g 0 0 0 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 t 0 0 0 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207
positions_7nt_m2_shift0 (positions_7nt_m2)				; oligos_7nt_mkv5_m4 versus positions_7nt_m2; m=16/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.526509; aCAcACACACACACACACACACAC ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_7nt_m4_shift10 (positions_7nt_m4)				; oligos_7nt_mkv5_m4 versus positions_7nt_m4; m=17/33; ncol2=24; w=-1; offset=-1; strand=D; shift=10; score=0.526506; ----------aCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 c 0 0 0 0 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 g 0 0 0 0 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 t 0 0 0 0 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405
positions_6nt_m8_shift9 (positions_6nt_m8)				; oligos_7nt_mkv5_m4 versus positions_6nt_m8; m=18/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.526451; ---------caCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 c 0 0 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 g 0 0 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 t 0 0 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427
positions_6nt_m7_shift7 (positions_6nt_m7)				; oligos_7nt_mkv5_m4 versus positions_6nt_m7; m=19/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.52645; -------cacamACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 c 0 0 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 g 0 0 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 t 0 0 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132
positions_6nt_m1_shift3 (positions_6nt_m1)				; oligos_7nt_mkv5_m4 versus positions_6nt_m1; m=20/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.526094; ---caCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 c 0 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 g 0 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 t 0 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006
positions_7nt_m8_shift8 (positions_7nt_m8)				; oligos_7nt_mkv5_m4 versus positions_7nt_m8; m=21/33; ncol2=24; w=-3; offset=-3; strand=D; shift=8; score=0.524722; --------acaCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 c 0 0 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 g 0 0 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 t 0 0 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445
dyads_m8_shift9 (dyads_m8)				; oligos_7nt_mkv5_m4 versus dyads_m8; m=22/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.524165; ---------cacACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 c 0 0 0 0 0 0 0 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 g 0 0 0 0 0 0 0 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 t 0 0 0 0 0 0 0 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645
positions_7nt_m9_shift3 (positions_7nt_m9)				; oligos_7nt_mkv5_m4 versus positions_7nt_m9; m=23/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.52407; ---caCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 c 0 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 g 0 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 t 0 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539
positions_7nt_m7_shift6 (positions_7nt_m7)				; oligos_7nt_mkv5_m4 versus positions_7nt_m7; m=24/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.52396; ------acaCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 c 0 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 g 0 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 t 0 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530
positions_7nt_m10_shift4 (positions_7nt_m10)				; oligos_7nt_mkv5_m4 versus positions_7nt_m10; m=25/33; ncol2=24; w=-7; offset=-7; strand=D; shift=4; score=0.523934; ----aCACACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 c 0 0 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 g 0 0 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 t 0 0 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475
positions_7nt_m3_shift3 (positions_7nt_m3)				; oligos_7nt_mkv5_m4 versus positions_7nt_m3; m=26/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.523698; ---cACACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 c 0 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 g 0 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 t 0 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527
dyads_m1_shift9 (dyads_m1)				; oligos_7nt_mkv5_m4 versus dyads_m1; m=27/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.523469; ---------caCaCACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 c 0 0 0 0 0 0 0 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 g 0 0 0 0 0 0 0 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 t 0 0 0 0 0 0 0 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619
positions_7nt_m6_shift7 (positions_7nt_m6)				; oligos_7nt_mkv5_m4 versus positions_7nt_m6; m=28/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.522556; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 c 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 g 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 t 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567
positions_7nt_m5_shift0 (positions_7nt_m5)				; oligos_7nt_mkv5_m4 versus positions_7nt_m5; m=29/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.521994; acAcACACACACACACACACACac ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_6nt_m10_shift10 (positions_6nt_m10)				; oligos_7nt_mkv5_m4 versus positions_6nt_m10; m=30/33; ncol2=24; w=-1; offset=-1; strand=D; shift=10; score=0.52183; ----------aCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 c 0 0 0 0 0 0 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 g 0 0 0 0 0 0 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 t 0 0 0 0 0 0 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416
positions_6nt_m6_shift2 (positions_6nt_m6)				; oligos_7nt_mkv5_m4 versus positions_6nt_m6; m=31/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.521506; --acaCacACACACACACACACAC ; cor=; Ncor= a 0 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 c 0 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 g 0 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 t 0 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820
positions_7nt_m1_shift9 (positions_7nt_m1)				; oligos_7nt_mkv5_m4 versus positions_7nt_m1; m=32/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.521002; ---------cacACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 c 0 0 0 0 0 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 g 0 0 0 0 0 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 t 0 0 0 0 0 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245
positions_6nt_m2_shift0 (positions_6nt_m2)				; oligos_7nt_mkv5_m4 versus positions_6nt_m2; m=33/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.519417; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m9_shift11 (dyads_m9)				; dyads_m9; m=0 (reference); ncol1=13; shift=11; ncol=24; -----------acATACACACmca ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
dyads_m9_shift11 (dyads_m9)				; dyads_m9 versus dyads_m9; m=1/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score= 1; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
dyads_m3_shift11 (dyads_m3)				; dyads_m9 versus dyads_m3; m=2/33; ncol2=14; w=0; offset=0; strand=D; shift=11; score=0.856093; -----------acAyACACACrCa ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 c 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 g 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 t 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415
dyads_m7_shift11 (dyads_m7)				; dyads_m9 versus dyads_m7; m=3/33; ncol2=14; w=0; offset=0; strand=D; shift=11; score=0.847495; -----------acAyACACACAya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)				; dyads_m9 versus oligos_7nt_mkv5_m5; m=4/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.735088; ----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)				; dyads_m9 versus oligos_7nt_mkv5_m4; m=5/33; ncol2=13; w=-1; offset=-1; strand=D; shift=10; score=0.726857; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0
oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)				; dyads_m9 versus oligos_7nt_mkv5_m8; m=6/33; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.676143; ---------ACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929
oligos_7nt_mkv5_m9_shift10 (oligos_7nt_mkv5_m9)				; dyads_m9 versus oligos_7nt_mkv5_m9; m=7/33; ncol2=13; w=-1; offset=-1; strand=D; shift=10; score=0.66505; ----------caCAsACACAAam- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 c 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 g 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 t 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; dyads_m9 versus oligos_6nt_mkv4_m2; m=8/33; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.659322; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_6nt_mkv4_m5_rc_shift11 (oligos_6nt_mkv4_m5_rc)				; dyads_m9 versus oligos_6nt_mkv4_m5_rc; m=9/33; ncol2=16; w=0; offset=0; strand=R; shift=11; score=0.627056; -----------acAsACACrCACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 c 0 0 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 g 0 0 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 t 0 0 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30
dyads_m10_shift11 (dyads_m10)				; dyads_m9 versus dyads_m10; m=10/33; ncol2=18; w=0; offset=0; strand=D; shift=11; score=0.620754; -----------ACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 c 0 0 0 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 g 0 0 0 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 t 0 0 0 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201
dyads_m2_shift4 (dyads_m2)				; dyads_m9 versus dyads_m2; m=11/33; ncol2=20; w=-7; offset=-7; strand=D; shift=4; score=0.550978; ----camACACACACACACACaca ; cor=; Ncor= a 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 c 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 g 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 t 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816
positions_7nt_m9_shift0 (positions_7nt_m9)				; dyads_m9 versus positions_7nt_m9; m=12/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.477947; caCACACACACACACACACACaca ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; dyads_m9 versus positions_6nt_m4_rc; m=13/33; ncol2=23; w=-10; offset=-10; strand=R; shift=1; score=0.476706; -acACACACACACACACACACAca ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869
positions_6nt_m1_shift0 (positions_6nt_m1)				; dyads_m9 versus positions_6nt_m1; m=14/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score= 0.4758; caCACACACACACACACACACaca ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111
positions_7nt_m3_shift0 (positions_7nt_m3)				; dyads_m9 versus positions_7nt_m3; m=15/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.475621; cACACACACACACACACACACaca ; cor=; Ncor= a 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 5839 c 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 1215 g 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 1773 t 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267 1213
positions_7nt_m10_shift1 (positions_7nt_m10)				; dyads_m9 versus positions_7nt_m10; m=16/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.465071; -aCACACACACACACACACACACa ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101
positions_6nt_m9_shift2 (positions_6nt_m9)				; dyads_m9 versus positions_6nt_m9; m=17/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.463999; --cACACACACACACACACACACA ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831
positions_6nt_m10_shift9 (positions_6nt_m10)				; dyads_m9 versus positions_6nt_m10; m=18/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.463478; ---------aCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 c 0 0 0 0 0 0 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 g 0 0 0 0 0 0 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 t 0 0 0 0 0 0 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139
positions_6nt_m7_shift4 (positions_6nt_m7)				; dyads_m9 versus positions_6nt_m7; m=19/33; ncol2=24; w=-7; offset=-7; strand=D; shift=4; score=0.463207; ----cacamACACACACACACACA ; cor=; Ncor= a 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 c 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 g 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 t 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85
positions_6nt_m5_shift5 (positions_6nt_m5)				; dyads_m9 versus positions_6nt_m5; m=20/33; ncol2=24; w=-6; offset=-6; strand=D; shift=5; score=0.463116; -----acamACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 c 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 g 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 t 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115
positions_7nt_m7_shift3 (positions_7nt_m7)				; dyads_m9 versus positions_7nt_m7; m=21/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.462789; ---acaCACACACACACACACACA ; cor=; Ncor= a 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 c 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 g 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 t 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494
positions_7nt_m2_shift11 (positions_7nt_m2)				; dyads_m9 versus positions_7nt_m2; m=22/33; ncol2=24; w=0; offset=0; strand=D; shift=11; score=0.462744; -----------aCAcACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 c 0 0 0 0 0 0 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 g 0 0 0 0 0 0 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 t 0 0 0 0 0 0 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89
positions_7nt_m8_shift5 (positions_7nt_m8)				; dyads_m9 versus positions_7nt_m8; m=23/33; ncol2=24; w=-6; offset=-6; strand=D; shift=5; score=0.461864; -----acaCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 c 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 g 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 t 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280
positions_7nt_m4_shift7 (positions_7nt_m4)				; dyads_m9 versus positions_7nt_m4; m=24/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.461738; -------aCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 c 0 0 0 0 0 0 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 g 0 0 0 0 0 0 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 t 0 0 0 0 0 0 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198
positions_6nt_m8_shift6 (positions_6nt_m8)				; dyads_m9 versus positions_6nt_m8; m=25/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.460653; ------caCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 c 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 g 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 t 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212
dyads_m8_shift0 (dyads_m8)				; dyads_m9 versus dyads_m8; m=26/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.460028; cacACACACACACACACACACaca ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
dyads_m1_shift0 (dyads_m1)				; dyads_m9 versus dyads_m1; m=27/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.459694; caCaCACACACACACACACACaca ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
positions_6nt_m6_shift1 (positions_6nt_m6)				; dyads_m9 versus positions_6nt_m6; m=28/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.45629; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142
positions_7nt_m6_shift8 (positions_7nt_m6)				; dyads_m9 versus positions_7nt_m6; m=29/33; ncol2=24; w=-3; offset=-3; strand=D; shift=8; score=0.455773; --------caCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 c 0 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 g 0 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 t 0 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468
positions_7nt_m5_shift11 (positions_7nt_m5)				; dyads_m9 versus positions_7nt_m5; m=30/33; ncol2=24; w=0; offset=0; strand=D; shift=11; score=0.455053; -----------acAcACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 c 0 0 0 0 0 0 0 0 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 g 0 0 0 0 0 0 0 0 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 t 0 0 0 0 0 0 0 0 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256
positions_6nt_m2_shift1 (positions_6nt_m2)				; dyads_m9 versus positions_6nt_m2; m=31/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.455014; -mmmmmmaCACACrCACACACaCa ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657
positions_6nt_m3_shift1 (positions_6nt_m3)				; dyads_m9 versus positions_6nt_m3; m=32/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.45217; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643
positions_7nt_m1_shift0 (positions_7nt_m1)				; dyads_m9 versus positions_7nt_m1; m=33/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.45174; cacACACACACACACACACACACa ; cor=; Ncor= a 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 5670 c 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 954 g 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 1393 t 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977 892

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=24; shift=0; ncol=24; mmmmmmaCACACrCACACACaCac ; Alignment reference a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m2 versus positions_6nt_m2; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_6nt_m6_shift0 (positions_6nt_m6)				; positions_6nt_m2 versus positions_6nt_m6; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.959159; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m5_shift0 (positions_6nt_m5)				; positions_6nt_m2 versus positions_6nt_m5; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.935678; acamACACACACACACACACACAC ; cor=; Ncor= a 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_7nt_m5_shift0 (positions_7nt_m5)				; positions_6nt_m2 versus positions_7nt_m5; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.92956; acAcACACACACACACACACACac ; cor=; Ncor= a 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_6nt_m10_shift0 (positions_6nt_m10)				; positions_6nt_m2 versus positions_6nt_m10; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.922918; aCACACACACACACACACACACac ; cor=; Ncor= a 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468
positions_7nt_m2_shift0 (positions_7nt_m2)				; positions_6nt_m2 versus positions_7nt_m2; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.918145; aCAcACACACACACACACACACAC ; cor=; Ncor= a 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_7nt_m8_shift0 (positions_7nt_m8)				; positions_6nt_m2 versus positions_7nt_m8; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.916176; acaCACACACACACACACACACac ; cor=; Ncor= a 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309
positions_7nt_m7_shift0 (positions_7nt_m7)				; positions_6nt_m2 versus positions_7nt_m7; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.914381; acaCACACACACACACACACACac ; cor=; Ncor= a 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292
positions_7nt_m10_shift0 (positions_7nt_m10)				; positions_6nt_m2 versus positions_7nt_m10; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.913729; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_6nt_m3_shift0 (positions_6nt_m3)				; positions_6nt_m2 versus positions_6nt_m3; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.911068; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m4_shift0 (positions_7nt_m4)				; positions_6nt_m2 versus positions_7nt_m4; m=11/33; ncol2=24; w=0; offset=0; strand=D; shift=0; score=0.898709; aCACACACACACACACACACAcac ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_6nt_m7_shift1 (positions_6nt_m7)				; positions_6nt_m2 versus positions_6nt_m7; m=12/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.878019; -cacamACACACACACACACACAC ; cor=; Ncor= a 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 c 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 g 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 t 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534
positions_6nt_m4_rc_shift0 (positions_6nt_m4_rc)				; positions_6nt_m2 versus positions_6nt_m4_rc; m=13/33; ncol2=23; w=0; offset=0; strand=R; shift=0; score=0.877849; acACACACACACACACACACAca- ; cor=; Ncor= a 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0
dyads_m8_shift1 (dyads_m8)				; positions_6nt_m2 versus dyads_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.869946; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
positions_7nt_m6_shift1 (positions_7nt_m6)				; positions_6nt_m2 versus positions_7nt_m6; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.868072; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590
positions_7nt_m9_shift1 (positions_7nt_m9)				; positions_6nt_m2 versus positions_7nt_m9; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.866985; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
dyads_m1_shift1 (dyads_m1)				; positions_6nt_m2 versus dyads_m1; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.864772; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_6nt_m1_shift1 (positions_6nt_m1)				; positions_6nt_m2 versus positions_6nt_m1; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.861073; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_6nt_m2 versus positions_7nt_m1; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.859373; -cacACACACACACACACACACAC ; cor=; Ncor= a 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977
positions_6nt_m8_shift1 (positions_6nt_m8)				; positions_6nt_m2 versus positions_6nt_m8; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.857039; -caCACACACACACACACACACAC ; cor=; Ncor= a 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239
positions_7nt_m3_shift1 (positions_7nt_m3)				; positions_6nt_m2 versus positions_7nt_m3; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.846742; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_6nt_m9_shift1 (positions_6nt_m9)				; positions_6nt_m2 versus positions_6nt_m9; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=1; score=0.844957; -cACACACACACACACACACACAc ; cor=; Ncor= a 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
dyads_m2_shift3 (dyads_m2)				; positions_6nt_m2 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=3; strand=D; shift=3; score=0.814072; ---camACACACACACACACaca- ; cor=; Ncor= a 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 c 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 g 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 t 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0
dyads_m10_shift6 (dyads_m10)				; positions_6nt_m2 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=6; score=0.734848; ------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
oligos_7nt_mkv5_m8_shift6 (oligos_7nt_mkv5_m8)				; positions_6nt_m2 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=6; strand=D; shift=6; score=0.65205; ------ACACACACACACACAC-- ; cor=; Ncor= a 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 0 0 c 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 0 0 g 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 0 0 t 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224 0 0
oligos_6nt_mkv4_m2_shift7 (oligos_6nt_mkv4_m2)				; positions_6nt_m2 versus oligos_6nt_mkv4_m2; m=26/33; ncol2=16; w=0; offset=7; strand=D; shift=7; score=0.591795; -------caCwCACAyACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 c 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 g 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 t 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0
oligos_6nt_mkv4_m5_rc_shift4 (oligos_6nt_mkv4_m5_rc)				; positions_6nt_m2 versus oligos_6nt_mkv4_m5_rc; m=27/33; ncol2=16; w=0; offset=4; strand=R; shift=4; score=0.591549; ----acAsACACrCACAsac---- ; cor=; Ncor= a 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 0 0 0 c 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 0 0 0 g 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 0 0 0 t 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0 0 0 0
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)				; positions_6nt_m2 versus oligos_7nt_mkv5_m4; m=28/33; ncol2=13; w=0; offset=11; strand=D; shift=11; score=0.519417; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
oligos_7nt_mkv5_m5_shift7 (oligos_7nt_mkv5_m5)				; positions_6nt_m2 versus oligos_7nt_mkv5_m5; m=29/33; ncol2=14; w=0; offset=7; strand=D; shift=7; score=0.512689; -------caCACGCACACmca--- ; cor=; Ncor= a 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 0 0 c 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 0 0 g 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 0 0 t 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0 0 0
dyads_m3_shift10 (dyads_m3)				; positions_6nt_m2 versus dyads_m3; m=30/33; ncol2=14; w=0; offset=10; strand=D; shift=10; score=0.512071; ----------acAyACACACrCac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 c 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 g 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 t 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
dyads_m7_shift10 (dyads_m7)				; positions_6nt_m2 versus dyads_m7; m=31/33; ncol2=14; w=0; offset=10; strand=D; shift=10; score=0.50279; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m9_shift10 (dyads_m9)				; positions_6nt_m2 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=10; strand=D; shift=10; score=0.455014; ----------acATACACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 c 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 g 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 t 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; positions_6nt_m2 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=11; strand=D; shift=11; score=0.425652; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=14; shift=10; ncol=24; ----------caCACGCACACmca ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m5; m=1/32; ncol2=14; w=0; offset=0; strand=D; shift=10; score= 1; ----------caCACGCACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501
oligos_7nt_mkv5_m4_shift10 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m4; m=2/32; ncol2=13; w=0; offset=0; strand=D; shift=10; score=0.799822; ----------caCACAcACACac- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 c 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 g 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 t 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0
dyads_m9_shift11 (dyads_m9)				; oligos_7nt_mkv5_m5 versus dyads_m9; m=3/32; ncol2=13; w=0; offset=1; strand=D; shift=11; score=0.735088; -----------acATACACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 c 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 g 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 t 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391
oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)				; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m8; m=4/32; ncol2=16; w=-1; offset=-1; strand=D; shift=9; score=0.731657; ---------ACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929
oligos_6nt_mkv4_m2_shift8 (oligos_6nt_mkv4_m2)				; oligos_7nt_mkv5_m5 versus oligos_6nt_mkv4_m2; m=5/32; ncol2=16; w=-2; offset=-2; strand=D; shift=8; score=0.719043; --------caCwCACAyACACmca ; cor=; Ncor= a 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 c 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 g 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 t 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421
oligos_6nt_mkv4_m5_rc_shift7 (oligos_6nt_mkv4_m5_rc)				; oligos_7nt_mkv5_m5 versus oligos_6nt_mkv4_m5_rc; m=6/32; ncol2=16; w=-3; offset=-3; strand=R; shift=7; score=0.694767; -------acAsACACrCACAsac- ; cor=; Ncor= a 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 0 c 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 0 g 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 0 t 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214 0
dyads_m10_shift7 (dyads_m10)				; oligos_7nt_mkv5_m5 versus dyads_m10; m=7/32; ncol2=18; w=-3; offset=-3; strand=D; shift=7; score=0.658409; -------ACACACACACACACrCA ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902
dyads_m3_shift11 (dyads_m3)				; oligos_7nt_mkv5_m5 versus dyads_m3; m=8/32; ncol2=14; w=0; offset=1; strand=D; shift=11; score=0.650552; -----------acAyACACACrCa ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 c 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 g 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 t 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415
dyads_m7_shift11 (dyads_m7)				; oligos_7nt_mkv5_m5 versus dyads_m7; m=9/32; ncol2=14; w=0; offset=1; strand=D; shift=11; score=0.64277; -----------acAyACACACAya ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 c 0 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 g 0 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 t 0 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401
dyads_m2_shift6 (dyads_m2)				; oligos_7nt_mkv5_m5 versus dyads_m2; m=10/32; ncol2=20; w=-4; offset=-4; strand=D; shift=6; score=0.612532; ------camACACACACACACACa ; cor=; Ncor= a 0 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 c 0 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 g 0 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 t 0 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308
positions_6nt_m4_rc_shift5 (positions_6nt_m4_rc)				; oligos_7nt_mkv5_m5 versus positions_6nt_m4_rc; m=11/32; ncol2=23; w=-5; offset=-5; strand=R; shift=5; score=0.525253; -----acACACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 c 0 0 0 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 g 0 0 0 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 t 0 0 0 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840
positions_6nt_m6_shift1 (positions_6nt_m6)				; oligos_7nt_mkv5_m5 versus positions_6nt_m6; m=12/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.517106; -acaCacACACACACACACACACa ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142
positions_6nt_m2_shift3 (positions_6nt_m2)				; oligos_7nt_mkv5_m5 versus positions_6nt_m2; m=13/32; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.512689; ---mmmmmmaCACACrCACACACa ; cor=; Ncor= a 0 0 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 c 0 0 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 g 0 0 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 t 0 0 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890
positions_7nt_m4_shift1 (positions_7nt_m4)				; oligos_7nt_mkv5_m5 versus positions_7nt_m4; m=14/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.510035; -aCACACACACACACACACACAca ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138
positions_7nt_m6_shift0 (positions_7nt_m6)				; oligos_7nt_mkv5_m5 versus positions_7nt_m6; m=15/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.508167; caCACACACACACACACACACACa ; cor=; Ncor= a 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 9253 c 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 1533 g 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 2360 t 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590 1504
positions_6nt_m8_shift0 (positions_6nt_m8)				; oligos_7nt_mkv5_m5 versus positions_6nt_m8; m=16/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.507868; caCACACACACACACACACACACa ; cor=; Ncor= a 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 7092 c 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 1158 g 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 1801 t 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239 1160
positions_6nt_m10_shift3 (positions_6nt_m10)				; oligos_7nt_mkv5_m5 versus positions_6nt_m10; m=17/32; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.507545; ---aCACACACACACACACACACA ; cor=; Ncor= a 0 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 c 0 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 g 0 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 t 0 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930
positions_7nt_m5_shift3 (positions_7nt_m5)				; oligos_7nt_mkv5_m5 versus positions_7nt_m5; m=18/32; ncol2=24; w=-7; offset=-7; strand=D; shift=3; score=0.501474; ---acAcACACACACACACACACA ; cor=; Ncor= a 0 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 c 0 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 g 0 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 t 0 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307
positions_7nt_m10_shift9 (positions_7nt_m10)				; oligos_7nt_mkv5_m5 versus positions_7nt_m10; m=19/32; ncol2=24; w=-1; offset=-1; strand=D; shift=9; score=0.500888; ---------aCACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 c 0 0 0 0 0 0 0 0 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 g 0 0 0 0 0 0 0 0 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 t 0 0 0 0 0 0 0 0 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186
positions_7nt_m3_shift8 (positions_7nt_m3)				; oligos_7nt_mkv5_m5 versus positions_7nt_m3; m=20/32; ncol2=24; w=-2; offset=-2; strand=D; shift=8; score=0.500348; --------cACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 c 0 0 0 0 0 0 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 g 0 0 0 0 0 0 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 t 0 0 0 0 0 0 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214
positions_7nt_m2_shift5 (positions_7nt_m2)				; oligos_7nt_mkv5_m5 versus positions_7nt_m2; m=21/32; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.498496; -----aCAcACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 c 0 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 g 0 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 t 0 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147
positions_7nt_m9_shift0 (positions_7nt_m9)				; oligos_7nt_mkv5_m5 versus positions_7nt_m9; m=22/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.496792; caCACACACACACACACACACaca ; cor=; Ncor= a 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 7165 c 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 1380 g 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 1995 t 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371 1341
dyads_m1_shift0 (dyads_m1)				; oligos_7nt_mkv5_m5 versus dyads_m1; m=23/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.496459; caCaCACACACACACACACACaca ; cor=; Ncor= a 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 8820 c 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 1821 g 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 2869 t 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900 1761
dyads_m8_shift0 (dyads_m8)				; oligos_7nt_mkv5_m5 versus dyads_m8; m=24/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.496063; cacACACACACACACACACACaca ; cor=; Ncor= a 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 8918 c 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 1857 g 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 2869 t 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875 1765
positions_7nt_m1_shift6 (positions_7nt_m1)				; oligos_7nt_mkv5_m5 versus positions_7nt_m1; m=25/32; ncol2=24; w=-4; offset=-4; strand=D; shift=6; score=0.496011; ------cacACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 c 0 0 0 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 g 0 0 0 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 t 0 0 0 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178
positions_6nt_m9_shift0 (positions_6nt_m9)				; oligos_7nt_mkv5_m5 versus positions_6nt_m9; m=26/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.490452; cACACACACACACACACACACAca ; cor=; Ncor= a 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 5864 c 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 1189 g 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 1728 t 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214 1029
positions_6nt_m1_shift0 (positions_6nt_m1)				; oligos_7nt_mkv5_m5 versus positions_6nt_m1; m=27/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.490066; caCACACACACACACACACACaca ; cor=; Ncor= a 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 5953 c 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 1360 g 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 1827 t 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256 1111
positions_6nt_m3_shift1 (positions_6nt_m3)				; oligos_7nt_mkv5_m5 versus positions_6nt_m3; m=28/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.489578; -acrCACACACACACACACACACa ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643
positions_6nt_m7_shift0 (positions_6nt_m7)				; oligos_7nt_mkv5_m5 versus positions_6nt_m7; m=29/32; ncol2=24; w=-10; offset=-10; strand=D; shift=0; score=0.486744; cacamACACACACACACACACACA ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446
positions_7nt_m8_shift1 (positions_7nt_m8)				; oligos_7nt_mkv5_m5 versus positions_7nt_m8; m=30/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.484463; -acaCACACACACACACACACACa ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016
positions_7nt_m7_shift5 (positions_7nt_m7)				; oligos_7nt_mkv5_m5 versus positions_7nt_m7; m=31/32; ncol2=24; w=-5; offset=-5; strand=D; shift=5; score=0.484231; -----acaCACACACACACACACA ; cor=; Ncor= a 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 c 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 g 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 t 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539
positions_6nt_m5_shift1 (positions_6nt_m5)				; oligos_7nt_mkv5_m5 versus positions_6nt_m5; m=32/32; ncol2=24; w=-9; offset=-9; strand=D; shift=1; score=0.482867; -acamACACACACACACACACACA ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m5_shift1 (positions_6nt_m5)				; positions_6nt_m5; m=0 (reference); ncol1=24; shift=1; ncol=25; -acamACACACACACACACACACAC ; Alignment reference a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_6nt_m5_shift1 (positions_6nt_m5)				; positions_6nt_m5 versus positions_6nt_m5; m=1/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score= 1; -acamACACACACACACACACACAC ; cor=; Ncor= a 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 6668 85 6492 126 5105 629 c 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 58 6732 111 6581 524 5039 g 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 278 81 347 162 905 669 t 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249 115 221 169 250 585 782
positions_7nt_m8_shift1 (positions_7nt_m8)				; positions_6nt_m5 versus positions_7nt_m8; m=2/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.99363; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 9681 257 9294 373 7260 1063 c 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 173 9861 253 9432 883 7237 g 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 671 216 873 454 1646 1196 t 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509 280 471 385 546 1016 1309
positions_7nt_m5_shift1 (positions_7nt_m5)				; positions_6nt_m5 versus positions_7nt_m5; m=3/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.988476; -acAcACACACACACACACACACac ; cor=; Ncor= a 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 6039 896 c 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 774 6003 g 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 1294 986 t 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599 789 1011
positions_7nt_m2_shift1 (positions_7nt_m2)				; positions_6nt_m5 versus positions_7nt_m2; m=4/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.987944; -aCAcACACACACACACACACACAC ; cor=; Ncor= a 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 7353 269 5677 696 c 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 134 7206 572 5681 g 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 392 245 1117 793 t 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305 190 349 703 899
positions_7nt_m7_shift1 (positions_7nt_m7)				; positions_6nt_m5 versus positions_7nt_m7; m=5/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.985185; -acaCACACACACACACACACACac ; cor=; Ncor= a 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 10510 202 10301 233 7877 298 9447 468 7167 1139 c 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 73 10478 139 10237 348 10067 353 9636 985 7524 g 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 521 151 566 268 2504 303 974 513 2014 1313 t 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355 164 437 262 530 539 600 494 651 1102 1292
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_6nt_m5 versus positions_6nt_m3; m=6/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.984404; -acrCACACACACACACACACACac ; cor=; Ncor= a 0 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 0 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 0 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 0 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m10_shift1 (positions_7nt_m10)				; positions_6nt_m5 versus positions_7nt_m10; m=7/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.979829; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 0 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 0 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 0 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_7nt_m4_shift1 (positions_7nt_m4)				; positions_6nt_m5 versus positions_7nt_m4; m=8/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976935; -aCACACACACACACACACACAcac ; cor=; Ncor= a 0 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 0 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 0 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 0 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_6nt_m6_shift1 (positions_6nt_m6)				; positions_6nt_m5 versus positions_6nt_m6; m=9/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976777; -acaCacACACACACACACACACac ; cor=; Ncor= a 0 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 0 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 0 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 0 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_6nt_m10_shift1 (positions_6nt_m10)				; positions_6nt_m5 versus positions_6nt_m10; m=10/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.976636; -aCACACACACACACACACACACac ; cor=; Ncor= a 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 7165 1442 c 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 1307 7303 g 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 2000 1480 t 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246 1221 1468
positions_6nt_m4_rc_shift1 (positions_6nt_m4_rc)				; positions_6nt_m5 versus positions_6nt_m4_rc; m=11/33; ncol2=23; w=0; offset=0; strand=R; shift=1; score=0.936184; -acACACACACACACACACACAca- ; cor=; Ncor= a 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 8945 0 c 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 1953 0 g 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 2802 0 t 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940 1869 0
positions_6nt_m2_shift1 (positions_6nt_m2)				; positions_6nt_m5 versus positions_6nt_m2; m=12/33; ncol2=24; w=0; offset=0; strand=D; shift=1; score=0.935678; -mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 0 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 0 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 0 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 0 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_6nt_m7_shift0 (positions_6nt_m7)				; positions_6nt_m5 versus positions_6nt_m7; m=13/33; ncol2=24; w=-1; offset=-1; strand=D; shift=0; score=0.918726; cacamACACACACACACACACACA- ; cor=; Ncor= a 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 5684 76 5541 353 4340 0 c 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 54 5709 109 4753 485 0 g 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 174 59 232 357 726 0 t 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165 85 153 115 534 446 0
positions_6nt_m8_shift2 (positions_6nt_m8)				; positions_6nt_m5 versus positions_6nt_m8; m=14/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.917413; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 10321 209 9964 264 9477 936 c 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 113 10324 186 10108 440 7963 g 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 565 203 754 346 784 1073 t 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495 212 475 307 493 510 1239
dyads_m8_shift2 (dyads_m8)				; positions_6nt_m5 versus dyads_m8; m=15/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.914144; --cacACACACACACACACACACac ; cor=; Ncor= a 0 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
positions_7nt_m6_shift2 (positions_7nt_m6)				; positions_6nt_m5 versus positions_7nt_m6; m=16/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.911639; --caCACACACACACACACACACAC ; cor=; Ncor= a 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 11472 261 13513 269 13088 351 12312 1238 c 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 248 13581 138 13515 217 13243 562 10480 g 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 2462 241 731 260 974 414 1092 1342 t 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569 468 567 268 606 371 642 684 1590
positions_7nt_m1_shift2 (positions_7nt_m1)				; positions_6nt_m5 versus positions_7nt_m1; m=17/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.910949; --cacACACACACACACACACACAC ; cor=; Ncor= a 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 7184 776 c 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 474 6223 g 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 787 933 t 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570 464 977
positions_7nt_m9_shift2 (positions_7nt_m9)				; positions_6nt_m5 versus positions_7nt_m9; m=18/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.909187; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
dyads_m1_shift2 (dyads_m1)				; positions_6nt_m5 versus dyads_m1; m=19/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.908686; --caCaCACACACACACACACACac ; cor=; Ncor= a 0 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_7nt_m3_shift2 (positions_7nt_m3)				; positions_6nt_m5 versus positions_7nt_m3; m=20/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.907193; --cACACACACACACACACACACac ; cor=; Ncor= a 0 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_6nt_m1_shift2 (positions_6nt_m1)				; positions_6nt_m5 versus positions_6nt_m1; m=21/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.905847; --caCACACACACACACACACACac ; cor=; Ncor= a 0 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
positions_6nt_m9_shift2 (positions_6nt_m9)				; positions_6nt_m5 versus positions_6nt_m9; m=22/33; ncol2=24; w=0; offset=1; strand=D; shift=2; score=0.905066; --cACACACACACACACACACACAc ; cor=; Ncor= a 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 9290 163 9128 184 8558 638 6882 1025 c 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 71 9128 146 8948 314 6900 859 6407 g 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 318 167 354 272 525 1235 1238 1164 t 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382 131 352 182 406 413 1037 831 1214
dyads_m2_shift2 (dyads_m2)				; positions_6nt_m5 versus dyads_m2; m=23/33; ncol2=20; w=0; offset=1; strand=D; shift=2; score=0.803403; --camACACACACACACACaca--- ; cor=; Ncor= a 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 2859 0 0 0 c 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 760 0 0 0 g 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 1111 0 0 0 t 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822 816 0 0 0
dyads_m10_shift7 (dyads_m10)				; positions_6nt_m5 versus dyads_m10; m=24/33; ncol2=18; w=0; offset=6; strand=D; shift=7; score=0.739193; -------ACACACACACACACrCAC ; cor=; Ncor= a 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 6989 910 c 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 744 7303 g 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 1578 877 t 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380 902 1123
oligos_7nt_mkv5_m8_shift9 (oligos_7nt_mkv5_m8)				; positions_6nt_m5 versus oligos_7nt_mkv5_m8; m=25/33; ncol2=16; w=0; offset=8; strand=D; shift=9; score=0.657393; ---------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_6nt_mkv4_m5_rc_shift9 (oligos_6nt_mkv4_m5_rc)				; positions_6nt_m5 versus oligos_6nt_mkv4_m5_rc; m=26/33; ncol2=16; w=0; offset=8; strand=R; shift=9; score=0.614194; ---------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214
oligos_6nt_mkv4_m2_shift2 (oligos_6nt_mkv4_m2)				; positions_6nt_m5 versus oligos_6nt_mkv4_m2; m=27/33; ncol2=16; w=0; offset=1; strand=D; shift=2; score=0.596444; --caCwCACAyACACmca------- ; cor=; Ncor= a 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 1178 0 0 0 0 0 0 0 c 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 465 0 0 0 0 0 0 0 g 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 432 0 0 0 0 0 0 0 t 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362 421 0 0 0 0 0 0 0
dyads_m3_shift7 (dyads_m3)				; positions_6nt_m5 versus dyads_m3; m=28/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.528916; -------acAyACACACrCac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395 0 0 0 0 c 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815 0 0 0 0 g 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 632 343 0 0 0 0 t 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154 415 413 0 0 0 0
oligos_7nt_mkv5_m4_shift4 (oligos_7nt_mkv5_m4)				; positions_6nt_m5 versus oligos_7nt_mkv5_m4; m=29/33; ncol2=13; w=0; offset=3; strand=D; shift=4; score=0.526625; ----caCACAcACACac-------- ; cor=; Ncor= a 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 0 0 0 0 0 0 0 0 c 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 0 0 0 0 0 0 0 0 g 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 0 0 0 0 0 0 0 0 t 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279 0 0 0 0 0 0 0 0
dyads_m7_shift7 (dyads_m7)				; positions_6nt_m5 versus dyads_m7; m=30/33; ncol2=14; w=0; offset=6; strand=D; shift=7; score=0.512022; -------acAyACACACAyac---- ; cor=; Ncor= a 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 0 0 0 0 c 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 0 0 0 0 g 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 0 0 0 0 t 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421 0 0 0 0
oligos_7nt_mkv5_m5_shift10 (oligos_7nt_mkv5_m5)				; positions_6nt_m5 versus oligos_7nt_mkv5_m5; m=31/33; ncol2=14; w=0; offset=9; strand=D; shift=10; score=0.482867; ----------caCACGCACACmca- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 460 1509 205 2555 45 520 37 2687 35 2652 46 968 624 1177 0 c 0 0 0 0 0 0 0 0 0 0 1722 359 2317 95 2713 96 2718 45 2733 70 2700 1562 1283 628 0 g 0 0 0 0 0 0 0 0 0 0 280 595 123 87 48 2153 40 64 21 60 67 155 526 545 0 t 0 0 0 0 0 0 0 0 0 0 389 388 206 114 45 82 56 55 62 69 38 166 418 501 0
dyads_m9_shift7 (dyads_m9)				; positions_6nt_m5 versus dyads_m9; m=32/33; ncol2=13; w=0; offset=6; strand=D; shift=7; score=0.463116; -------acATACACACmca----- ; cor=; Ncor= a 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 1082 0 0 0 0 0 c 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 522 0 0 0 0 0 g 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 440 0 0 0 0 0 t 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371 391 0 0 0 0 0
oligos_7nt_mkv5_m9_shift6 (oligos_7nt_mkv5_m9)				; positions_6nt_m5 versus oligos_7nt_mkv5_m9; m=33/33; ncol2=13; w=0; offset=5; strand=D; shift=6; score=0.424786; ------caCAsACACAAam------ ; cor=; Ncor= a 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 0 0 0 0 0 0 c 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 0 0 0 0 0 0 g 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 0 0 0 0 0 0 t 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; oligos_7nt_mkv5_m9; m=0 (reference); ncol1=13; shift=11; ncol=24; -----------caCAsACACAAam ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270
oligos_7nt_mkv5_m9_shift11 (oligos_7nt_mkv5_m9)				; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m9; m=1/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score= 1; -----------caCAsACACAAam ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494 c 0 0 0 0 0 0 0 0 0 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796 g 0 0 0 0 0 0 0 0 0 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324 t 0 0 0 0 0 0 0 0 0 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270
oligos_7nt_mkv5_m4_shift11 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m4; m=2/33; ncol2=13; w=0; offset=0; strand=D; shift=11; score=0.779584; -----------caCACAcACACac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 1616 5949 121 8874 84 8611 2218 8784 54 8849 112 5929 1185 c 0 0 0 0 0 0 0 0 0 0 0 5506 794 8776 44 8848 265 5812 99 8906 48 8808 804 5541 g 0 0 0 0 0 0 0 0 0 0 0 663 1558 47 67 42 67 257 96 17 101 57 1381 1022 t 0 0 0 0 0 0 0 0 0 0 0 1242 726 83 42 53 84 740 48 50 29 50 913 1279
dyads_m7_shift10 (dyads_m7)				; oligos_7nt_mkv5_m9 versus dyads_m7; m=3/33; ncol2=14; w=-1; offset=-1; strand=D; shift=10; score=0.702162; ----------acAyACACACAyac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 1763 381 2620 124 2741 84 2776 70 2703 73 2647 156 1615 405 c 0 0 0 0 0 0 0 0 0 0 455 1780 115 863 58 2638 31 2656 75 2647 89 786 455 1694 g 0 0 0 0 0 0 0 0 0 0 374 287 105 76 65 58 59 35 66 71 78 168 440 391 t 0 0 0 0 0 0 0 0 0 0 319 463 71 1848 47 131 45 150 67 120 97 1801 401 421
dyads_m9_shift12 (dyads_m9)				; oligos_7nt_mkv5_m9 versus dyads_m9; m=4/33; ncol2=13; w=0; offset=1; strand=D; shift=12; score=0.66505; ------------acATACACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1425 347 2251 103 2337 38 2277 26 2263 37 767 520 c 0 0 0 0 0 0 0 0 0 0 0 0 426 1452 85 532 46 2255 72 2298 85 2267 1376 1114 g 0 0 0 0 0 0 0 0 0 0 0 0 318 252 52 45 26 51 36 34 26 65 149 430 t 0 0 0 0 0 0 0 0 0 0 0 0 266 384 47 1755 26 91 50 77 61 66 143 371
oligos_7nt_mkv5_m8_shift8 (oligos_7nt_mkv5_m8)				; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m8; m=5/33; ncol2=16; w=-3; offset=-3; strand=D; shift=8; score=0.66036; --------ACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 8417 950 10951 81 10965 77 11008 365 10967 66 10969 97 10629 540 7871 1079 c 0 0 0 0 0 0 0 0 930 9006 72 10941 81 10953 55 8641 61 10901 68 10841 199 8182 1031 7805 g 0 0 0 0 0 0 0 0 1252 434 157 68 126 82 127 261 144 98 141 131 216 1684 1414 1137 t 0 0 0 0 0 0 0 0 646 855 65 155 73 133 55 1978 73 180 67 176 201 839 929 1224
oligos_7nt_mkv5_m1_shift13 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m9 versus oligos_7nt_mkv5_m1; m=6/33; ncol2=11; w=0; offset=2; strand=D; shift=13; score=0.64976; -------------maAACACAAmm ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 0 0 0 0 0 0 0 0 0 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 0 0 0 0 0 0 0 0 0 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 0 0 0 0 0 0 0 0 0 0 0 329 421 49 57 114 35 99 92 54 457 315
dyads_m3_shift12 (dyads_m3)				; oligos_7nt_mkv5_m9 versus dyads_m3; m=7/33; ncol2=14; w=0; offset=1; strand=D; shift=12; score=0.610056; ------------acAyACACACrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 c 0 0 0 0 0 0 0 0 0 0 0 0 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 g 0 0 0 0 0 0 0 0 0 0 0 0 397 308 87 73 56 48 79 46 91 79 1901 135 t 0 0 0 0 0 0 0 0 0 0 0 0 310 439 76 1851 38 88 38 92 76 75 163 154
oligos_6nt_mkv4_m5_rc_shift8 (oligos_6nt_mkv4_m5_rc)				; oligos_7nt_mkv5_m9 versus oligos_6nt_mkv4_m5_rc; m=8/33; ncol2=16; w=-3; offset=-3; strand=R; shift=8; score=0.59826; --------acAsACACrCACAsac ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1060 237 1560 90 1619 38 1626 36 575 28 1623 27 1567 83 977 294 c 0 0 0 0 0 0 0 0 211 1041 67 898 28 1556 23 1593 24 1604 14 1580 38 760 280 895 g 0 0 0 0 0 0 0 0 297 217 57 611 38 62 32 48 1077 43 39 50 62 792 260 294 t 0 0 0 0 0 0 0 0 129 202 13 98 12 41 16 20 21 22 21 40 30 62 180 214
oligos_6nt_mkv4_m2_shift9 (oligos_6nt_mkv4_m2)				; oligos_7nt_mkv5_m9 versus oligos_6nt_mkv4_m2; m=9/33; ncol2=16; w=-2; offset=-2; strand=D; shift=9; score=0.576659; ---------caCwCACAyACACmc ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 354 1372 201 1288 45 2275 28 2326 80 2334 48 2249 76 1031 414 c 0 0 0 0 0 0 0 0 0 1513 351 1970 137 2340 82 2376 70 757 75 2331 94 2225 1092 1338 g 0 0 0 0 0 0 0 0 0 219 379 117 231 33 68 23 50 41 26 38 70 95 215 382 t 0 0 0 0 0 0 0 0 0 410 394 208 840 78 71 69 50 1618 61 79 83 100 158 362
dyads_m10_shift8 (dyads_m10)				; oligos_7nt_mkv5_m9 versus dyads_m10; m=10/33; ncol2=18; w=-3; offset=-3; strand=D; shift=8; score=0.563617; --------ACACACACACACACrC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7238 1045 9369 539 9735 122 9879 128 9866 92 9777 133 9544 141 6688 222 c 0 0 0 0 0 0 0 0 1135 7513 282 7314 129 9753 75 9760 58 9807 42 9764 113 9671 320 9327 g 0 0 0 0 0 0 0 0 1101 600 342 286 208 86 171 64 179 69 269 87 355 180 2725 284 t 0 0 0 0 0 0 0 0 739 1055 220 2074 141 252 88 261 110 245 125 229 201 221 480 380
dyads_m2_shift5 (dyads_m2)				; oligos_7nt_mkv5_m9 versus dyads_m2; m=11/33; ncol2=20; w=-6; offset=-6; strand=D; shift=5; score=0.503447; -----camACACACACACACACac ; cor=; Ncor= a 0 0 0 0 0 965 3377 1678 5060 154 5244 90 5341 63 3968 63 5368 41 5276 41 5210 128 3152 571 c 0 0 0 0 0 3349 891 3227 170 5234 40 5358 28 5333 80 5322 14 5384 26 5404 78 5174 357 3514 g 0 0 0 0 0 544 801 227 203 44 204 40 104 50 1298 40 110 29 170 32 141 100 729 639 t 0 0 0 0 0 688 477 414 113 114 58 58 73 100 200 121 54 92 74 69 117 144 1308 822
positions_6nt_m1_shift1 (positions_6nt_m1)				; oligos_7nt_mkv5_m9 versus positions_6nt_m1; m=12/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.443916; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1674 6587 1131 8301 728 8673 1754 9648 192 9938 120 9903 103 9751 355 9734 123 9734 183 9180 1248 6526 1151 c 0 6338 1249 7674 663 8487 566 7492 189 9728 64 9816 60 9760 85 7946 117 9678 107 9532 313 7183 1249 6633 g 0 900 1442 542 747 409 633 322 260 80 181 87 181 102 255 304 270 128 272 201 422 814 1449 1211 t 0 1339 973 904 540 627 379 683 154 251 68 228 107 286 160 1646 130 322 138 335 336 1006 1027 1256
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; oligos_7nt_mkv5_m9 versus positions_6nt_m4_rc; m=13/33; ncol2=23; w=-9; offset=-9; strand=R; shift=2; score=0.442567; --acACACACACACACACACACAc ; cor=; Ncor= a 0 0 9168 2155 10987 1406 11341 491 14026 313 14448 275 12108 234 14802 175 14521 181 14385 356 11002 944 10625 1570 c 0 0 2259 10347 1415 12206 911 14293 207 14693 140 14711 251 14723 73 14762 85 14801 213 14220 827 12216 1328 10414 g 0 0 2286 1200 1813 699 1774 257 837 155 555 178 2637 155 463 134 686 151 599 370 1900 1065 2135 1645 t 0 0 1856 1867 1354 1258 1543 528 499 408 426 405 573 457 231 498 277 436 372 623 1840 1344 1481 1940
positions_6nt_m3_shift0 (positions_6nt_m3)				; oligos_7nt_mkv5_m9 versus positions_6nt_m3; m=14/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.437995; acrCACACACACACACACACACac ; cor=; Ncor= a 4080 788 3871 196 5925 157 6088 127 6155 710 6239 63 6278 66 6213 197 6162 85 6121 111 5834 407 4316 637 c 818 4387 428 5903 145 6062 77 6106 94 5226 58 6244 25 6196 49 5061 60 6106 84 6030 184 4713 642 4311 g 907 478 1795 116 275 74 220 80 136 158 120 42 121 78 148 197 181 96 182 138 252 746 882 772 t 678 830 389 268 138 190 98 170 98 389 66 134 59 143 73 1028 80 196 96 204 213 617 643 763
positions_7nt_m4_shift0 (positions_7nt_m4)				; oligos_7nt_mkv5_m9 versus positions_7nt_m4; m=15/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.430514; aCACACACACACACACACACAcac ; cor=; Ncor= a 6769 1192 8814 404 9298 305 9480 530 9617 158 9633 154 9657 149 7837 166 9403 190 9084 253 8621 1226 6327 1215 c 1193 7287 432 9154 238 9346 174 8039 136 9637 64 9669 70 9478 184 9408 117 9390 179 9195 448 6894 1148 6419 g 1337 613 602 212 426 183 362 320 292 120 377 121 333 186 1863 185 500 188 669 322 665 965 1605 1302 t 919 1126 370 448 256 384 202 1329 173 303 144 274 158 405 334 459 198 450 286 448 484 1133 1138 1282
positions_7nt_m9_shift1 (positions_7nt_m9)				; oligos_7nt_mkv5_m9 versus positions_7nt_m9; m=16/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.430438; -caCACACACACACACACACACac ; cor=; Ncor= a 0 1950 7364 1364 9206 993 9729 1950 10944 266 11328 195 11410 153 11267 420 11221 143 11214 219 10770 389 8028 1196 c 0 7206 1545 8743 890 9491 766 8689 279 11115 104 11259 78 11287 96 9462 107 11169 129 11039 246 10512 1343 8048 g 0 1093 1733 668 1055 556 847 399 419 133 299 118 246 119 340 323 388 170 372 207 537 441 1536 1266 t 0 1632 1239 1106 730 841 539 843 239 367 150 309 147 322 178 1676 165 399 166 416 328 539 974 1371
positions_6nt_m9_shift9 (positions_6nt_m9)				; oligos_7nt_mkv5_m9 versus positions_6nt_m9; m=17/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.430132; ---------cACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 1351 6855 477 8777 314 9023 536 9253 185 9413 147 9371 819 9262 150 c 0 0 0 0 0 0 0 0 0 6610 914 8605 289 8922 221 7589 128 9220 89 9295 103 8031 103 9123 g 0 0 0 0 0 0 0 0 0 647 1302 248 463 188 344 281 267 119 186 118 213 275 308 155 t 0 0 0 0 0 0 0 0 0 1202 739 480 281 386 222 1404 162 286 122 250 123 685 137 382
positions_7nt_m10_shift0 (positions_7nt_m10)				; oligos_7nt_mkv5_m9 versus positions_7nt_m10; m=18/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.430118; aCACACACACACACACACACACac ; cor=; Ncor= a 6854 1310 8871 524 9437 361 7995 241 10073 162 10086 133 10115 886 9935 162 9994 198 9729 253 9049 851 6712 1199 c 1303 7487 487 9383 288 9630 300 9935 83 10084 69 10130 125 8714 135 9932 105 9842 201 9615 432 7432 1177 6806 g 1501 684 826 272 588 256 1960 150 327 117 361 129 268 331 417 176 417 199 484 330 667 1253 1683 1328 t 1015 1192 489 494 360 426 418 347 190 310 157 281 165 742 186 403 157 434 259 475 525 1137 1101 1340
positions_7nt_m3_shift1 (positions_7nt_m3)				; oligos_7nt_mkv5_m9 versus positions_7nt_m3; m=19/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.428794; -cACACACACACACACACACACac ; cor=; Ncor= a 0 1381 6832 501 8691 340 9068 281 7708 177 9562 103 9509 114 9477 387 9231 166 9265 222 8839 339 6570 1011 c 0 6713 940 8739 302 9117 200 9198 230 9454 57 9569 68 9514 104 7899 135 9300 142 9198 267 8727 783 6578 g 0 737 1399 245 663 175 456 179 1714 94 274 71 315 112 291 323 460 179 424 191 572 447 1323 1184 t 0 1209 869 555 384 408 316 382 388 315 147 297 148 300 168 1431 214 395 209 429 362 527 1364 1267
positions_6nt_m10_shift2 (positions_6nt_m10)				; oligos_7nt_mkv5_m9 versus positions_6nt_m10; m=20/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.427078; --aCACACACACACACACACACAC ; cor=; Ncor= a 0 0 7466 1478 9426 738 9988 826 10932 224 11038 176 11147 154 9139 135 11103 152 10871 178 10527 730 8366 991 c 0 0 1500 8063 784 9791 510 8621 183 11008 86 11129 68 11051 173 11004 64 11035 124 10912 287 8556 953 8314 g 0 0 1606 806 891 423 769 411 387 135 413 109 316 159 2051 138 387 135 513 220 536 1280 1444 1142 t 0 0 1121 1346 592 741 426 1835 191 326 156 279 162 329 330 416 139 371 185 383 343 1127 930 1246
positions_7nt_m1_shift3 (positions_7nt_m1)				; oligos_7nt_mkv5_m9 versus positions_7nt_m1; m=21/33; ncol2=24; w=-8; offset=-8; strand=D; shift=3; score=0.425983; ---cacACACACACACACACACAC ; cor=; Ncor= a 0 0 0 1446 5793 2034 7701 393 8099 264 8378 189 7073 120 8539 86 8535 80 8509 117 8227 335 7988 313 c 0 0 0 5634 1210 5720 420 8011 155 8297 77 8387 145 8486 42 8541 41 8506 63 8367 147 6672 242 7636 g 0 0 0 771 1135 380 497 165 475 105 307 110 1413 80 228 55 246 78 220 121 357 356 443 390 t 0 0 0 1058 771 775 291 340 180 243 147 223 278 223 100 227 87 245 117 304 178 1546 236 570
positions_6nt_m2_shift0 (positions_6nt_m2)				; oligos_7nt_mkv5_m9 versus positions_6nt_m2; m=22/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.425652; mmmmmmaCACACrCACACACaCac ; cor=; Ncor= a 1976 1421 1813 2043 2202 1829 3002 319 4970 139 5172 110 3697 93 5299 53 5244 49 5209 111 3668 354 3315 615 c 1544 2207 2209 2024 1977 2553 1221 4839 124 5173 74 5231 121 5239 30 5314 32 5331 63 5169 347 4284 638 3623 g 937 884 682 659 682 428 830 133 280 56 151 67 1466 57 113 33 173 34 132 91 609 386 904 586 t 1057 1002 810 788 653 704 461 223 140 146 117 106 230 125 72 114 65 100 110 143 890 490 657 690
positions_6nt_m5_shift6 (positions_6nt_m5)				; oligos_7nt_mkv5_m9 versus positions_6nt_m5; m=23/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.424786; ------acamACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 4151 1214 4372 1849 6181 280 6554 207 6711 360 6780 83 6828 83 6829 99 5468 81 c 0 0 0 0 0 0 1196 4265 1330 4316 345 6462 163 6628 113 5545 95 6839 34 6841 39 6720 103 6728 g 0 0 0 0 0 0 925 695 799 319 379 109 262 94 189 190 168 55 195 47 172 93 1330 61 t 0 0 0 0 0 0 847 945 618 635 214 268 140 190 106 1024 76 142 62 148 79 207 218 249
positions_7nt_m7_shift10 (positions_7nt_m7)				; oligos_7nt_mkv5_m9 versus positions_7nt_m7; m=24/33; ncol2=24; w=-1; offset=-1; strand=D; shift=10; score=0.424122; ----------acaCACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 6884 1557 7537 661 9938 351 10416 255 10625 192 10618 423 10667 121 c 0 0 0 0 0 0 0 0 0 0 1608 7471 1409 9662 348 10278 179 10497 121 10557 118 9231 124 10644 g 0 0 0 0 0 0 0 0 0 0 1549 847 1472 283 606 183 437 148 312 140 346 258 313 148 t 0 0 0 0 0 0 0 0 0 0 1227 1393 850 662 376 456 236 368 210 379 186 1356 164 355
positions_6nt_m7_shift5 (positions_6nt_m7)				; oligos_7nt_mkv5_m9 versus positions_6nt_m7; m=25/33; ncol2=24; w=-6; offset=-6; strand=D; shift=5; score=0.424075; -----cacamACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 1104 3603 1318 3772 1597 5363 216 5647 146 5717 277 5789 54 5796 59 5785 66 4677 60 c 0 0 0 0 0 3513 996 3578 1268 3731 245 5526 114 5668 79 4694 62 5793 25 5806 31 5736 73 5722 g 0 0 0 0 0 615 733 487 549 239 262 67 160 73 136 127 99 36 138 36 122 63 1094 50 t 0 0 0 0 0 765 665 614 408 430 127 188 76 110 65 899 47 114 38 96 59 132 153 165
positions_7nt_m8_shift6 (positions_7nt_m8)				; oligos_7nt_mkv5_m9 versus positions_7nt_m8; m=26/33; ncol2=24; w=-5; offset=-5; strand=D; shift=6; score=0.423804; ------acaCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 6500 1443 7195 556 9488 336 9866 281 10047 502 10197 134 10173 168 10118 185 8125 195 c 0 0 0 0 0 0 1532 7139 998 9347 353 9874 221 9994 155 8652 128 10254 64 10189 77 9967 222 9898 g 0 0 0 0 0 0 1522 793 1424 294 581 159 421 158 382 306 309 121 420 123 416 208 2065 203 t 0 0 0 0 0 0 1251 1430 1188 608 383 436 297 372 221 1345 171 296 148 325 194 445 393 509
positions_6nt_m8_shift7 (positions_6nt_m8)				; oligos_7nt_mkv5_m9 versus positions_6nt_m8; m=27/33; ncol2=24; w=-4; offset=-4; strand=D; shift=7; score=0.423786; -------caCACACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 1696 7159 1362 9451 518 10097 390 10322 605 10496 190 10554 178 10583 182 8756 182 c 0 0 0 0 0 0 0 6995 1420 7812 550 9927 286 10173 197 8887 157 10552 69 10602 74 10408 187 10341 g 0 0 0 0 0 0 0 1024 1579 836 774 257 532 218 451 347 365 140 432 129 382 194 1914 193 t 0 0 0 0 0 0 0 1496 1053 1201 436 509 296 430 241 1372 193 329 156 302 172 427 354 495
dyads_m8_shift1 (dyads_m8)				; oligos_7nt_mkv5_m9 versus dyads_m8; m=28/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.422022; -cacACACACACACACACACACac ; cor=; Ncor= a 0 2611 9662 3108 12447 990 13558 652 14182 426 14340 314 14448 272 14397 292 14205 314 13640 444 12783 687 9287 1544 c 0 9412 2187 9925 1015 13137 457 13798 246 14205 177 14348 122 14354 129 14210 170 14072 266 13684 530 12885 1125 10264 g 0 1408 2091 869 1235 438 934 314 649 223 592 197 557 209 637 262 745 313 1093 462 1373 819 3745 1726 t 0 1978 1469 1507 712 844 460 645 332 555 300 550 282 574 246 645 289 710 410 819 723 1018 1252 1875
dyads_m1_shift1 (dyads_m1)				; oligos_7nt_mkv5_m9 versus dyads_m1; m=29/33; ncol2=24; w=-10; offset=-10; strand=D; shift=1; score=0.421586; -caCaCACACACACACACACACac ; cor=; Ncor= a 0 2296 9593 1225 10078 751 13271 514 13808 390 14213 334 14292 278 14240 277 14026 330 13494 435 12647 666 9192 1511 c 0 9774 1805 12212 996 13299 394 13883 248 14154 154 14223 116 14219 120 14125 162 13915 285 13607 530 12789 1103 10161 g 0 1246 2297 650 3187 380 1059 252 840 199 601 195 577 215 646 250 778 316 1076 453 1375 799 3714 1699 t 0 1955 1576 1184 1010 841 547 622 375 528 303 519 286 559 265 619 305 710 416 776 719 1017 1262 1900
positions_7nt_m5_shift2 (positions_7nt_m5)				; oligos_7nt_mkv5_m9 versus positions_7nt_m5; m=30/33; ncol2=24; w=-9; offset=-9; strand=D; shift=2; score=0.421334; --acAcACACACACACACACACAC ; cor=; Ncor= a 0 0 5644 1251 6807 1870 7946 349 8307 211 8393 151 8480 115 7111 87 8535 92 8385 100 8201 375 7759 394 c 0 0 1267 5955 855 5963 323 8101 133 8348 51 8461 55 8442 116 8486 39 8441 70 8377 154 6562 299 7395 g 0 0 1138 695 712 325 409 158 320 98 316 83 242 98 1413 85 241 94 314 119 369 396 531 508 t 0 0 847 995 522 738 218 288 136 239 136 201 119 241 256 238 81 269 127 300 172 1563 307 599
positions_6nt_m6_shift0 (positions_6nt_m6)				; oligos_7nt_mkv5_m9 versus positions_6nt_m6; m=31/33; ncol2=24; w=-11; offset=-11; strand=D; shift=0; score=0.418999; acaCacACACACACACACACACac ; cor=; Ncor= a 5382 1628 6496 1163 6198 1950 6965 341 9355 152 9447 127 9572 127 7544 82 9553 64 9347 116 7140 653 6251 1014 c 1768 5987 1310 7182 1877 6536 1286 9166 169 9522 71 9641 64 9499 131 9623 49 9636 85 9519 511 7825 1066 6677 g 1480 953 1117 718 1014 540 1076 151 256 61 300 49 195 105 1952 60 217 54 337 129 1051 660 1499 1023 t 1328 1390 1035 895 869 932 631 300 178 223 140 141 127 227 331 193 139 204 189 194 1256 820 1142 1244
positions_7nt_m6_shift9 (positions_7nt_m6)				; oligos_7nt_mkv5_m9 versus positions_7nt_m6; m=32/33; ncol2=24; w=-2; offset=-2; strand=D; shift=9; score=0.418788; ---------caCACACACACACAC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 2528 8794 1789 10805 1364 11654 2427 13056 551 13654 354 13697 254 13694 261 c 0 0 0 0 0 0 0 0 0 8600 1996 10403 1312 11358 1051 10605 452 13318 179 13684 94 13783 115 13557 g 0 0 0 0 0 0 0 0 0 1429 2227 975 1500 768 1163 530 743 253 559 188 628 181 563 263 t 0 0 0 0 0 0 0 0 0 2093 1633 1483 1033 1160 782 1088 399 528 258 424 231 432 278 569
positions_7nt_m2_shift4 (positions_7nt_m2)				; oligos_7nt_mkv5_m9 versus positions_7nt_m2; m=33/33; ncol2=24; w=-7; offset=-7; strand=D; shift=4; score=0.417907; ----aCAcACACACACACACACAC ; cor=; Ncor= a 0 0 0 0 5124 1038 6334 666 7184 241 7464 181 7619 148 6454 91 7729 77 7629 82 7649 274 7431 152 c 0 0 0 0 1101 5510 632 5476 252 7405 116 7560 81 7574 132 7707 42 7704 59 7661 74 6214 123 7486 g 0 0 0 0 1041 548 639 328 419 131 333 90 237 108 1247 63 209 63 281 97 235 236 368 126 t 0 0 0 0 803 973 464 1599 214 292 156 238 132 239 236 208 89 225 100 229 111 1345 147 305