One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/01/10/peak-motifs.2026-01-10.173413_2026-01-10.173413_ct8LJt/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/2026/01/10/peak-motifs.2026-01-10.173413_2026-01-10.173413_ct8LJt/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

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=10; shift=0; ncol=10; tyCTTTTCyy ; Alignment reference a 421 497 48 7 39 36 29 31 475 418 c 530 631 2182 0 0 1 0 2211 746 637 g 553 442 11 80 11 2 0 0 249 474 t 738 672 1 2155 2192 2203 2213 0 772 713

oligos_6nt_mkv4_m3_shift0 (oligos_6nt_mkv4_m3)
; oligos_6nt_mkv4_m3 versus oligos_6nt_mkv4_m3; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; tyCTTTTCyy ; cor=; Ncor= a 421 497 48 7 39 36 29 31 475 418 c 530 631 2182 0 0 1 0 2211 746 637 g 553 442 11 80 11 2 0 0 249 474 t 738 672 1 2155 2192 2203 2213 0 772 713

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m1_shift2 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=13; shift=2; ncol=15; --ksCAGGACCTgss ; Alignment reference a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 1208 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 1572 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 1534 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833 953

oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)
; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m1; m=1/4; ncol2=13; w=0; offset=0; strand=D; shift=2; score= 1; --ksCAGGACCTgss ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 1208 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 1572 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 1534 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833 953

positions_6nt_m1_shift3 (positions_6nt_m1)
; oligos_6nt_mkv4_m1 versus positions_6nt_m1; m=2/4; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.812118; ---scAGGACCtgg- ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 0 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 0 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 0 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884 0

oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)
; oligos_6nt_mkv4_m1 versus oligos_7nt_mkv5_m1; m=3/4; ncol2=16; w=-2; offset=-2; strand=D; shift=0; score=0.78796; sbtcCAGGACCTGgs ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 847 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 1144 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 1157 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398 602

positions_7nt_m1_shift1 (positions_7nt_m1)
; oligos_6nt_mkv4_m1 versus positions_7nt_m1; m=4/4; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.62193; -bsCCAGGACcy--- ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 0 0 0 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 0 0 0 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 0 0 0 t 0 1257 1214 160 196 135 165 159 89 148 797 1240 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift3 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m1_shift3 (positions_6nt_m1)
; positions_6nt_m1; m=0 (reference); ncol1=11; shift=3; ncol=14; ---scAGGACCtgg ; Alignment reference a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884

positions_6nt_m1_shift3 (positions_6nt_m1)
; positions_6nt_m1 versus positions_6nt_m1; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---scAGGACCtgg ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884

oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)
; positions_6nt_m1 versus oligos_6nt_mkv4_m1; m=2/4; ncol2=13; w=-1; offset=-1; strand=D; shift=2; score=0.812118; --ksCAGGACCTgs ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833

oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)
; positions_6nt_m1 versus oligos_7nt_mkv5_m1; m=3/4; ncol2=16; w=-3; offset=-3; strand=D; shift=0; score=0.647377; sbtcCAGGACCTGg ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_6nt_m1 versus positions_7nt_m1; m=4/4; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.594098; -bsCCAGGACcy-- ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 0 0 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 0 0 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 0 0 t 0 1257 1214 160 196 135 165 159 89 148 797 1240 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift4 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m2_shift4 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=11; shift=4; ncol=15; ----ssCCCGCCCss ; Alignment reference a 0 0 0 0 1041 1077 236 277 18 73 169 224 151 969 844 c 0 0 0 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 2887 g 0 0 0 0 2375 2174 800 769 169 7369 226 788 575 2633 2798 t 0 0 0 0 1127 1164 329 159 27 2 212 138 106 1033 916

positions_6nt_m2_shift4 (positions_6nt_m2)
; positions_6nt_m2 versus positions_6nt_m2; m=1/5; ncol2=11; w=0; offset=0; strand=D; shift=4; score= 1; ----ssCCCGCCCss ; cor=; Ncor= a 0 0 0 0 1041 1077 236 277 18 73 169 224 151 969 844 c 0 0 0 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 2887 g 0 0 0 0 2375 2174 800 769 169 7369 226 788 575 2633 2798 t 0 0 0 0 1127 1164 329 159 27 2 212 138 106 1033 916

positions_7nt_m2_shift3 (positions_7nt_m2)
; positions_6nt_m2 versus positions_7nt_m2; m=2/5; ncol2=11; w=-1; offset=-1; strand=D; shift=3; score=0.754531; ---ssCCCCGCCss- ; cor=; Ncor= a 0 0 0 1195 1256 215 358 329 17 74 172 124 1034 854 0 c 0 0 0 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 0 g 0 0 0 2838 2635 429 1374 918 228 7844 193 577 3097 2354 0 t 0 0 0 1056 1417 223 211 178 18 8 174 71 1083 1015 0

positions_6nt_m4_rc_shift5 (positions_6nt_m4_rc)
; positions_6nt_m2 versus positions_6nt_m4_rc; m=3/5; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.691941; -----csTCGCCCss ; cor=; Ncor= a 0 0 0 0 0 262 234 3 0 0 21 50 18 355 250 c 0 0 0 0 0 767 701 0 1854 0 1793 1552 1684 635 610 g 0 0 0 0 0 455 678 3 0 1854 18 232 148 511 697 t 0 0 0 0 0 370 241 1848 0 0 22 20 4 353 297

oligos_7nt_mkv5_m4_shift6 (oligos_7nt_mkv5_m4)
; positions_6nt_m2 versus oligos_7nt_mkv5_m4; m=4/5; ncol2=11; w=0; offset=2; strand=D; shift=6; score=0.588419; ------ssCGCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 1075 987 3 53 220 223 368 254 136 c 0 0 0 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 6386 g 0 0 0 0 0 0 2260 2456 7 7091 199 786 1374 795 551 t 0 0 0 0 0 0 918 835 13 3 297 213 239 153 75

oligos_7nt_mkv5_m5_rc_shift0 (oligos_7nt_mkv5_m5_rc)
; positions_6nt_m2 versus oligos_7nt_mkv5_m5_rc; m=5/5; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.401047; ssCGCTCCCGss--- ; cor=; Ncor= a 570 437 161 84 44 86 34 48 139 134 500 592 0 0 0 c 1526 1708 3346 316 3676 390 3572 3667 3508 225 1543 1554 0 0 0 g 1168 1208 272 3345 132 343 200 127 152 3378 1457 1182 0 0 0 t 654 565 139 173 66 3099 112 76 119 181 418 590 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m3; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCCCGGAss ; Alignment reference a 367 436 17 32 0 0 0 2202 447 387 c 686 590 2158 1986 2196 8 10 0 674 705 g 746 680 25 183 6 2194 2156 0 824 780 t 403 496 2 1 0 0 36 0 257 330

positions_6nt_m3_shift0 (positions_6nt_m3)
; positions_6nt_m3 versus positions_6nt_m3; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ssCCCGGAss ; cor=; Ncor= a 367 436 17 32 0 0 0 2202 447 387 c 686 590 2158 1986 2196 8 10 0 674 705 g 746 680 25 183 6 2194 2156 0 824 780 t 403 496 2 1 0 0 36 0 257 330

positions_7nt_m1_shift0 (positions_7nt_m1)
; positions_6nt_m3 versus positions_7nt_m1; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.661093; bsCCAGGACc ; cor=; Ncor= a 940 981 287 118 4089 77 85 4661 43 935 c 1341 1234 4083 4243 277 149 236 74 4623 1931 g 1321 1430 329 302 358 4468 4379 35 45 1196 t 1257 1214 160 196 135 165 159 89 148 797

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m2_shift0 ; 3 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=12; shift=0; ncol=12; ssCGCAGGCGss ; Alignment reference a 507 450 132 74 63 2583 28 50 134 108 444 568 c 1043 1090 2814 227 2965 232 151 207 2891 184 1258 1139 g 1210 1274 217 2872 208 330 3001 2960 120 2823 1171 1095 t 498 444 95 85 22 113 78 41 113 143 385 456

oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2)
; oligos_7nt_mkv5_m2 versus oligos_7nt_mkv5_m2; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ssCGCAGGCGss ; cor=; Ncor= a 507 450 132 74 63 2583 28 50 134 108 444 568 c 1043 1090 2814 227 2965 232 151 207 2891 184 1258 1139 g 1210 1274 217 2872 208 330 3001 2960 120 2823 1171 1095 t 498 444 95 85 22 113 78 41 113 143 385 456

oligos_7nt_mkv5_m3_rc_shift0 (oligos_7nt_mkv5_m3_rc)
; oligos_7nt_mkv5_m2 versus oligos_7nt_mkv5_m3_rc; m=2/2; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.825027; ssCGCAGCCGss ; cor=; Ncor= a 627 484 185 91 66 2973 27 50 154 145 470 651 c 1340 1899 3623 222 3860 685 94 3943 3765 283 2017 1608 g 1640 1240 240 3769 237 349 4063 172 159 3623 1295 1362 t 600 584 159 125 44 200 23 42 129 156 425 586

One-to-n matrix alignment; reference matrix: positions_6nt_m5_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCGTCCCss ; Alignment reference a 339 441 0 1 6 110 147 24 363 352 c 1014 699 2367 0 0 2178 1833 2091 877 695 g 643 906 1 2368 0 53 347 233 710 962 t 373 323 1 0 2363 28 42 21 419 360

positions_6nt_m5_shift0 (positions_6nt_m5)
; positions_6nt_m5 versus positions_6nt_m5; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ssCGTCCCss ; cor=; Ncor= a 339 441 0 1 6 110 147 24 363 352 c 1014 699 2367 0 0 2178 1833 2091 877 695 g 643 906 1 2368 0 53 347 233 710 962 t 373 323 1 0 2363 28 42 21 419 360

oligos_7nt_mkv5_m4_shift0 (oligos_7nt_mkv5_m4)
; positions_6nt_m5 versus oligos_7nt_mkv5_m4; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.662781; ssCGCCCCCs ; cor=; Ncor= a 1075 987 3 53 220 223 368 254 136 1185 c 2895 2870 7125 1 6432 5926 5167 5946 6386 1852 g 2260 2456 7 7091 199 786 1374 795 551 3012 t 918 835 13 3 297 213 239 153 75 1099

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m4_shift3 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---ssCGCCCCCss ; Alignment reference a 0 0 0 1075 987 3 53 220 223 368 254 136 1185 883 c 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 6386 1852 2957 g 0 0 0 2260 2456 7 7091 199 786 1374 795 551 3012 2483 t 0 0 0 918 835 13 3 297 213 239 153 75 1099 825

oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m4; m=1/7; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---ssCGCCCCCss ; cor=; Ncor= a 0 0 0 1075 987 3 53 220 223 368 254 136 1185 883 c 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 6386 1852 2957 g 0 0 0 2260 2456 7 7091 199 786 1374 795 551 3012 2483 t 0 0 0 918 835 13 3 297 213 239 153 75 1099 825

oligos_7nt_mkv5_m5_rc_shift3 (oligos_7nt_mkv5_m5_rc)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m5_rc; m=2/7; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.753654; ---ssCGCTCCCGs ; cor=; Ncor= a 0 0 0 570 437 161 84 44 86 34 48 139 134 500 c 0 0 0 1526 1708 3346 316 3676 390 3572 3667 3508 225 1543 g 0 0 0 1168 1208 272 3345 132 343 200 127 152 3378 1457 t 0 0 0 654 565 139 173 66 3099 112 76 119 181 418

oligos_7nt_mkv5_m3_rc_shift3 (oligos_7nt_mkv5_m3_rc)
; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m3_rc; m=3/7; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.667432; ---ssCGCAGCCGs ; cor=; Ncor= a 0 0 0 627 484 185 91 66 2973 27 50 154 145 470 c 0 0 0 1340 1899 3623 222 3860 685 94 3943 3765 283 2017 g 0 0 0 1640 1240 240 3769 237 349 4063 172 159 3623 1295 t 0 0 0 600 584 159 125 44 200 23 42 129 156 425

positions_6nt_m5_shift3 (positions_6nt_m5)
; oligos_7nt_mkv5_m4 versus positions_6nt_m5; m=4/7; ncol2=10; w=0; offset=0; strand=D; shift=3; score=0.662781; ---ssCGTCCCss- ; cor=; Ncor= a 0 0 0 339 441 0 1 6 110 147 24 363 352 0 c 0 0 0 1014 699 2367 0 0 2178 1833 2091 877 695 0 g 0 0 0 643 906 1 2368 0 53 347 233 710 962 0 t 0 0 0 373 323 1 0 2363 28 42 21 419 360 0

positions_6nt_m2_shift1 (positions_6nt_m2)
; oligos_7nt_mkv5_m4 versus positions_6nt_m2; m=5/7; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.588419; -ssCCCGCCCss-- ; cor=; Ncor= a 0 1041 1077 236 277 18 73 169 224 151 969 844 0 0 c 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 2887 0 0 g 0 2375 2174 800 769 169 7369 226 788 575 2633 2798 0 0 t 0 1127 1164 329 159 27 2 212 138 106 1033 916 0 0

positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)
; oligos_7nt_mkv5_m4 versus positions_6nt_m4_rc; m=6/7; ncol2=10; w=-1; offset=-1; strand=R; shift=2; score=0.573133; --csTCGCCCss-- ; cor=; Ncor= a 0 0 262 234 3 0 0 21 50 18 355 250 0 0 c 0 0 767 701 0 1854 0 1793 1552 1684 635 610 0 0 g 0 0 455 678 3 0 1854 18 232 148 511 697 0 0 t 0 0 370 241 1848 0 0 22 20 4 353 297 0 0

positions_7nt_m2_shift0 (positions_7nt_m2)
; oligos_7nt_mkv5_m4 versus positions_7nt_m2; m=7/7; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.50498; ssCCCCGCCss--- ; cor=; Ncor= a 1195 1256 215 358 329 17 74 172 124 1034 854 0 0 0 c 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 0 0 0 g 2838 2635 429 1374 918 228 7844 193 577 3097 2354 0 0 0 t 1056 1417 223 211 178 18 8 174 71 1083 1015 0 0 0

One-to-n matrix alignment; reference matrix: positions_6nt_m4_shift2 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m4_shift2 (positions_6nt_m4)
; positions_6nt_m4; m=0 (reference); ncol1=10; shift=2; ncol=12; --ssGGGCGAsg ; Alignment reference a 0 0 297 353 4 20 22 0 0 1848 241 370 c 0 0 697 511 148 232 18 1854 0 3 678 455 g 0 0 610 635 1684 1552 1793 0 1854 0 701 767 t 0 0 250 355 18 50 21 0 0 3 234 262

positions_6nt_m4_shift2 (positions_6nt_m4)
; positions_6nt_m4 versus positions_6nt_m4; m=1/3; ncol2=10; w=0; offset=0; strand=D; shift=2; score= 1; --ssGGGCGAsg ; cor=; Ncor= a 0 0 297 353 4 20 22 0 0 1848 241 370 c 0 0 697 511 148 232 18 1854 0 3 678 455 g 0 0 610 635 1684 1552 1793 0 1854 0 701 767 t 0 0 250 355 18 50 21 0 0 3 234 262

positions_6nt_m2_rc_shift2 (positions_6nt_m2_rc)
; positions_6nt_m4 versus positions_6nt_m2_rc; m=2/3; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.691941; --ssGGGCGGGs ; cor=; Ncor= a 0 0 916 1033 106 138 212 2 27 159 329 1164 c 0 0 2798 2633 575 788 226 7369 169 769 800 2174 g 0 0 2887 2810 6613 6295 6838 1 7231 6240 6080 3030 t 0 0 844 969 151 224 169 73 18 277 236 1077

oligos_7nt_mkv5_m4_rc_shift0 (oligos_7nt_mkv5_m4_rc)
; positions_6nt_m4 versus oligos_7nt_mkv5_m4_rc; m=3/3; ncol2=11; w=-2; offset=-2; strand=R; shift=0; score=0.573133; ssGGGGGCGss- ; cor=; Ncor= a 825 1099 75 153 239 213 297 3 13 835 918 0 c 2483 3012 551 795 1374 786 199 7091 7 2456 2260 0 g 2957 1852 6386 5946 5167 5926 6432 1 7125 2870 2895 0 t 883 1185 136 254 368 223 220 53 3 987 1075 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m5_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)
; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; csCGGCTCss ; Alignment reference a 283 276 0 0 44 24 14 19 357 253 c 1096 675 2238 6 7 2160 0 2214 895 763 g 517 883 0 2232 2145 44 201 5 599 860 t 342 404 0 0 42 10 2023 0 387 362

oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)
; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m5; m=1/3; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; csCGGCTCss ; cor=; Ncor= a 283 276 0 0 44 24 14 19 357 253 c 1096 675 2238 6 7 2160 0 2214 895 763 g 517 883 0 2232 2145 44 201 5 599 860 t 342 404 0 0 42 10 2023 0 387 362

oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)
; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m3; m=2/3; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.594428; ssCGGCTGCG ; cor=; Ncor= a 586 425 156 129 42 23 200 44 125 159 c 1362 1295 3623 159 172 4063 349 237 3769 240 g 1608 2017 283 3765 3943 94 685 3860 222 3623 t 651 470 145 154 50 27 2973 66 91 185

oligos_6nt_mkv4_m2_rc_shift2 (oligos_6nt_mkv4_m2_rc)
; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m2_rc; m=3/3; ncol2=11; w=0; offset=2; strand=R; shift=2; score=0.458139; --ssGCTCCG ; cor=; Ncor= a 0 0 727 869 112 153 263 92 47 63 c 0 0 2187 1865 224 4774 317 4724 4897 54 g 0 0 1666 1793 4796 220 730 395 252 5109 t 0 0 692 745 140 125 3962 61 76 46

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=16; shift=0; ncol=16; sbtcCAGGACCTGgss ; Alignment reference a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 847 875 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 1144 1017 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 1157 1068 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398 602 790

oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m1; m=1/4; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; sbtcCAGGACCTGgss ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 847 875 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 1144 1017 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 1157 1068 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398 602 790

oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)
; oligos_7nt_mkv5_m1 versus oligos_6nt_mkv4_m1; m=2/4; ncol2=13; w=0; offset=2; strand=D; shift=2; score=0.78796; --ksCAGGACCTgss- ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 1208 0 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 1572 0 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 1534 0 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833 953 0

positions_6nt_m1_shift3 (positions_6nt_m1)
; oligos_7nt_mkv5_m1 versus positions_6nt_m1; m=3/4; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.647377; ---scAGGACCtgg-- ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 0 0 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 0 0 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 0 0 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884 0 0

positions_7nt_m1_shift1 (positions_7nt_m1)
; oligos_7nt_mkv5_m1 versus positions_7nt_m1; m=4/4; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.597879; -bsCCAGGACcy---- ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 0 0 0 0 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 0 0 0 0 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 0 0 0 0 t 0 1257 1214 160 196 135 165 159 89 148 797 1240 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m3_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; ssCGGCTGCGss ; Alignment reference a 586 425 156 129 42 23 200 44 125 159 584 600 c 1362 1295 3623 159 172 4063 349 237 3769 240 1240 1640 g 1608 2017 283 3765 3943 94 685 3860 222 3623 1899 1340 t 651 470 145 154 50 27 2973 66 91 185 484 627

oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m3; m=1/6; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ssCGGCTGCGss ; cor=; Ncor= a 586 425 156 129 42 23 200 44 125 159 584 600 c 1362 1295 3623 159 172 4063 349 237 3769 240 1240 1640 g 1608 2017 283 3765 3943 94 685 3860 222 3623 1899 1340 t 651 470 145 154 50 27 2973 66 91 185 484 627

oligos_7nt_mkv5_m2_rc_shift0 (oligos_7nt_mkv5_m2_rc)
; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m2_rc; m=2/6; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.825027; ssCGCCTGCGss ; cor=; Ncor= a 456 385 143 113 41 78 113 22 85 95 444 498 c 1095 1171 2823 120 2960 3001 330 208 2872 217 1274 1210 g 1139 1258 184 2891 207 151 232 2965 227 2814 1090 1043 t 568 444 108 134 50 28 2583 63 74 132 450 507

oligos_7nt_mkv5_m5_shift0 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m5; m=3/6; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.703445; ssCGGGAGCGss ; cor=; Ncor= a 590 418 181 119 76 112 3099 66 173 139 565 654 c 1182 1457 3378 152 127 200 343 132 3345 272 1208 1168 g 1554 1543 225 3508 3667 3572 390 3676 316 3346 1708 1526 t 592 500 134 139 48 34 86 44 84 161 437 570

oligos_7nt_mkv5_m4_rc_shift1 (oligos_7nt_mkv5_m4_rc)
; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m4_rc; m=4/6; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.667432; -ssGGGGGCGss ; cor=; Ncor= a 0 825 1099 75 153 239 213 297 3 13 835 918 c 0 2483 3012 551 795 1374 786 199 7091 7 2456 2260 g 0 2957 1852 6386 5946 5167 5926 6432 1 7125 2870 2895 t 0 883 1185 136 254 368 223 220 53 3 987 1075

positions_7nt_m2_rc_shift1 (positions_7nt_m2_rc)
; oligos_7nt_mkv5_m3 versus positions_7nt_m2_rc; m=5/6; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.650824; -ssGGCGGGGss ; cor=; Ncor= a 0 1015 1083 71 174 8 18 178 211 223 1417 1056 c 0 2354 3097 577 193 7844 228 918 1374 429 2635 2838 g 0 3704 2713 7155 7388 1 7664 6502 5984 7060 2619 2838 t 0 854 1034 124 172 74 17 329 358 215 1256 1195

oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)
; oligos_7nt_mkv5_m3 versus oligos_6nt_mkv4_m5; m=6/6; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.594428; csCGGCTCss-- ; cor=; Ncor= a 283 276 0 0 44 24 14 19 357 253 0 0 c 1096 675 2238 6 7 2160 0 2214 895 763 0 0 g 517 883 0 2232 2145 44 201 5 599 860 0 0 t 342 404 0 0 42 10 2023 0 387 362 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m2_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m2_shift1 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssGCGGAGCss ; Alignment reference a 0 851 596 200 46 76 61 3962 125 140 745 692 c 0 1848 2367 726 5109 252 395 730 220 4796 1793 1666 g 0 1878 1562 4075 54 4897 4724 317 4774 224 1865 2187 t 0 695 747 271 63 47 92 263 153 112 869 727

oligos_6nt_mkv4_m2_shift1 (oligos_6nt_mkv4_m2)
; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m2; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ssGCGGAGCss ; cor=; Ncor= a 0 851 596 200 46 76 61 3962 125 140 745 692 c 0 1848 2367 726 5109 252 395 730 220 4796 1793 1666 g 0 1878 1562 4075 54 4897 4724 317 4774 224 1865 2187 t 0 695 747 271 63 47 92 263 153 112 869 727

positions_7nt_m2_rc_shift0 (positions_7nt_m2_rc)
; oligos_6nt_mkv4_m2 versus positions_7nt_m2_rc; m=2/3; ncol2=11; w=-1; offset=-1; strand=R; shift=0; score=0.618031; ssGGCGGGGss- ; cor=; Ncor= a 1015 1083 71 174 8 18 178 211 223 1417 1056 0 c 2354 3097 577 193 7844 228 918 1374 429 2635 2838 0 g 3704 2713 7155 7388 1 7664 6502 5984 7060 2619 2838 0 t 854 1034 124 172 74 17 329 358 215 1256 1195 0

oligos_6nt_mkv4_m5_rc_shift4 (oligos_6nt_mkv4_m5_rc)
; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m5_rc; m=3/3; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.458139; ----ssGAGCCG ; cor=; Ncor= a 0 0 0 0 362 387 0 2023 10 42 0 0 c 0 0 0 0 860 599 5 201 44 2145 2232 0 g 0 0 0 0 763 895 2214 0 2160 7 6 2238 t 0 0 0 0 253 357 19 14 24 44 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift1 ; 6 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=11; shift=1; ncol=12; -bsCCAGGACcy ; Alignment reference a 0 940 981 287 118 4089 77 85 4661 43 935 743 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 t 0 1257 1214 160 196 135 165 159 89 148 797 1240

positions_7nt_m1_shift1 (positions_7nt_m1)
; positions_7nt_m1 versus positions_7nt_m1; m=1/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -bsCCAGGACcy ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 t 0 1257 1214 160 196 135 165 159 89 148 797 1240

positions_6nt_m3_shift1 (positions_6nt_m3)
; positions_7nt_m1 versus positions_6nt_m3; m=2/5; ncol2=10; w=0; offset=0; strand=D; shift=1; score=0.661093; -ssCCCGGAss- ; cor=; Ncor= a 0 367 436 17 32 0 0 0 2202 447 387 0 c 0 686 590 2158 1986 2196 8 10 0 674 705 0 g 0 746 680 25 183 6 2194 2156 0 824 780 0 t 0 403 496 2 1 0 0 36 0 257 330 0

oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)
; positions_7nt_m1 versus oligos_6nt_mkv4_m1; m=3/5; ncol2=13; w=0; offset=1; strand=D; shift=2; score=0.62193; --ksCAGGACCT ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 t 0 0 1374 967 210 112 73 85 661 130 155 4177

oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)
; positions_7nt_m1 versus oligos_7nt_mkv5_m1; m=4/5; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.597879; sbtcCAGGACCT ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 t 627 1031 1801 452 332 94 70 71 485 98 93 3214

positions_6nt_m1_shift3 (positions_6nt_m1)
; positions_7nt_m1 versus positions_6nt_m1; m=5/5; ncol2=11; w=0; offset=2; strand=D; shift=3; score=0.594098; ---scAGGACCt ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 t 0 0 0 988 779 31 152 148 98 95 77 3193

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift2 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m2_shift2 (positions_7nt_m2)
; positions_7nt_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --ssCCCCGCCss ; Alignment reference a 0 0 1195 1256 215 358 329 17 74 172 124 1034 854 c 0 0 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 g 0 0 2838 2635 429 1374 918 228 7844 193 577 3097 2354 t 0 0 1056 1417 223 211 178 18 8 174 71 1083 1015

positions_7nt_m2_shift2 (positions_7nt_m2)
; positions_7nt_m2 versus positions_7nt_m2; m=1/6; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --ssCCCCGCCss ; cor=; Ncor= a 0 0 1195 1256 215 358 329 17 74 172 124 1034 854 c 0 0 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 g 0 0 2838 2635 429 1374 918 228 7844 193 577 3097 2354 t 0 0 1056 1417 223 211 178 18 8 174 71 1083 1015

positions_6nt_m2_shift3 (positions_6nt_m2)
; positions_7nt_m2 versus positions_6nt_m2; m=2/6; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.754531; ---ssCCCGCCCs ; cor=; Ncor= a 0 0 0 1041 1077 236 277 18 73 169 224 151 969 c 0 0 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 g 0 0 0 2375 2174 800 769 169 7369 226 788 575 2633 t 0 0 0 1127 1164 329 159 27 2 212 138 106 1033

oligos_7nt_mkv5_m3_rc_shift2 (oligos_7nt_mkv5_m3_rc)
; positions_7nt_m2 versus oligos_7nt_mkv5_m3_rc; m=3/6; ncol2=12; w=0; offset=0; strand=R; shift=2; score=0.650824; --ssCGCAGCCGs ; cor=; Ncor= a 0 0 627 484 185 91 66 2973 27 50 154 145 470 c 0 0 1340 1899 3623 222 3860 685 94 3943 3765 283 2017 g 0 0 1640 1240 240 3769 237 349 4063 172 159 3623 1295 t 0 0 600 584 159 125 44 200 23 42 129 156 425

oligos_6nt_mkv4_m2_rc_shift1 (oligos_6nt_mkv4_m2_rc)
; positions_7nt_m2 versus oligos_6nt_mkv4_m2_rc; m=4/6; ncol2=11; w=-1; offset=-1; strand=R; shift=1; score=0.618031; -ssGCTCCGCss- ; cor=; Ncor= a 0 727 869 112 153 263 92 47 63 271 747 695 0 c 0 2187 1865 224 4774 317 4724 4897 54 4075 1562 1878 0 g 0 1666 1793 4796 220 730 395 252 5109 726 2367 1848 0 t 0 692 745 140 125 3962 61 76 46 200 596 851 0

oligos_6nt_mkv4_m4_rc_shift0 (oligos_6nt_mkv4_m4_rc)
; positions_7nt_m2 versus oligos_6nt_mkv4_m4_rc; m=5/6; ncol2=13; w=-2; offset=-2; strand=R; shift=0; score=0.604272; cstGCCCTGCcss ; cor=; Ncor= a 376 373 163 35 37 63 36 92 38 62 223 407 352 c 1042 1028 470 104 2312 2200 2349 171 96 2265 1679 927 849 g 621 698 286 2256 54 155 68 149 2275 72 404 642 768 t 447 387 1567 91 83 68 33 2074 77 87 180 510 517

oligos_7nt_mkv5_m4_shift5 (oligos_7nt_mkv5_m4)
; positions_7nt_m2 versus oligos_7nt_mkv5_m4; m=6/6; ncol2=11; w=0; offset=3; strand=D; shift=5; score=0.50498; -----ssCGCCCC ; cor=; Ncor= a 0 0 0 0 0 1075 987 3 53 220 223 368 254 c 0 0 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 g 0 0 0 0 0 2260 2456 7 7091 199 786 1374 795 t 0 0 0 0 0 918 835 13 3 297 213 239 153

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m4_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m4_shift0 (oligos_6nt_mkv4_m4)
; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=13; shift=0; ncol=13; ssgGCAGGGCasg ; Alignment reference a 517 510 180 87 77 2074 33 68 83 91 1567 387 447 c 768 642 404 72 2275 149 68 155 54 2256 286 698 621 g 849 927 1679 2265 96 171 2349 2200 2312 104 470 1028 1042 t 352 407 223 62 38 92 36 63 37 35 163 373 376

oligos_6nt_mkv4_m4_shift0 (oligos_6nt_mkv4_m4)
; oligos_6nt_mkv4_m4 versus oligos_6nt_mkv4_m4; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; ssgGCAGGGCasg ; cor=; Ncor= a 517 510 180 87 77 2074 33 68 83 91 1567 387 447 c 768 642 404 72 2275 149 68 155 54 2256 286 698 621 g 849 927 1679 2265 96 171 2349 2200 2312 104 470 1028 1042 t 352 407 223 62 38 92 36 63 37 35 163 373 376

positions_7nt_m2_rc_shift0 (positions_7nt_m2_rc)
; oligos_6nt_mkv4_m4 versus positions_7nt_m2_rc; m=2/2; ncol2=11; w=0; offset=0; strand=R; shift=0; score=0.604272; ssGGCGGGGss-- ; cor=; Ncor= a 1015 1083 71 174 8 18 178 211 223 1417 1056 0 0 c 2354 3097 577 193 7844 228 918 1374 429 2635 2838 0 0 g 3704 2713 7155 7388 1 7664 6502 5984 7060 2619 2838 0 0 t 854 1034 124 172 74 17 329 358 215 1256 1195 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m5_shift3 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m5_shift3 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssCGGGAGCGss ; Alignment reference a 0 0 0 590 418 181 119 76 112 3099 66 173 139 565 654 c 0 0 0 1182 1457 3378 152 127 200 343 132 3345 272 1208 1168 g 0 0 0 1554 1543 225 3508 3667 3572 390 3676 316 3346 1708 1526 t 0 0 0 592 500 134 139 48 34 86 44 84 161 437 570

oligos_7nt_mkv5_m5_shift3 (oligos_7nt_mkv5_m5)
; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m5; m=1/4; ncol2=12; w=0; offset=0; strand=D; shift=3; score= 1; ---ssCGGGAGCGss ; cor=; Ncor= a 0 0 0 590 418 181 119 76 112 3099 66 173 139 565 654 c 0 0 0 1182 1457 3378 152 127 200 343 132 3345 272 1208 1168 g 0 0 0 1554 1543 225 3508 3667 3572 390 3676 316 3346 1708 1526 t 0 0 0 592 500 134 139 48 34 86 44 84 161 437 570

oligos_7nt_mkv5_m4_rc_shift4 (oligos_7nt_mkv5_m4_rc)
; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m4_rc; m=2/4; ncol2=11; w=0; offset=1; strand=R; shift=4; score=0.753654; ----ssGGGGGCGss ; cor=; Ncor= a 0 0 0 0 825 1099 75 153 239 213 297 3 13 835 918 c 0 0 0 0 2483 3012 551 795 1374 786 199 7091 7 2456 2260 g 0 0 0 0 2957 1852 6386 5946 5167 5926 6432 1 7125 2870 2895 t 0 0 0 0 883 1185 136 254 368 223 220 53 3 987 1075

oligos_7nt_mkv5_m3_shift3 (oligos_7nt_mkv5_m3)
; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m3; m=3/4; ncol2=12; w=0; offset=0; strand=D; shift=3; score=0.703445; ---ssCGGCTGCGss ; cor=; Ncor= a 0 0 0 586 425 156 129 42 23 200 44 125 159 584 600 c 0 0 0 1362 1295 3623 159 172 4063 349 237 3769 240 1240 1640 g 0 0 0 1608 2017 283 3765 3943 94 685 3860 222 3623 1899 1340 t 0 0 0 651 470 145 154 50 27 2973 66 91 185 484 627

positions_6nt_m2_rc_shift0 (positions_6nt_m2_rc)
; oligos_7nt_mkv5_m5 versus positions_6nt_m2_rc; m=4/4; ncol2=11; w=-3; offset=-3; strand=R; shift=0; score=0.401047; ssGGGCGGGss---- ; cor=; Ncor= a 916 1033 106 138 212 2 27 159 329 1164 1127 0 0 0 0 c 2798 2633 575 788 226 7369 169 769 800 2174 2375 0 0 0 0 g 2887 2810 6613 6295 6838 1 7231 6240 6080 3030 2902 0 0 0 0 t 844 969 151 224 169 73 18 277 236 1077 1041 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)				; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=13; shift=2; ncol=15; --ksCAGGACCTgss ; Alignment reference a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 1208 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 1572 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 1534 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833 953
oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)				; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m1; m=1/4; ncol2=13; w=0; offset=0; strand=D; shift=2; score= 1; --ksCAGGACCTgss ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 1208 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 1572 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 1534 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833 953
positions_6nt_m1_shift3 (positions_6nt_m1)				; oligos_6nt_mkv4_m1 versus positions_6nt_m1; m=2/4; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.812118; ---scAGGACCtgg- ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 0 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 0 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 0 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884 0
oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)				; oligos_6nt_mkv4_m1 versus oligos_7nt_mkv5_m1; m=3/4; ncol2=16; w=-2; offset=-2; strand=D; shift=0; score=0.78796; sbtcCAGGACCTGgs ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 847 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 1144 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 1157 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398 602
positions_7nt_m1_shift1 (positions_7nt_m1)				; oligos_6nt_mkv4_m1 versus positions_7nt_m1; m=4/4; ncol2=11; w=-1; offset=-1; strand=D; shift=1; score=0.62193; -bsCCAGGACcy--- ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 0 0 0 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 0 0 0 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 0 0 0 t 0 1257 1214 160 196 135 165 159 89 148 797 1240 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m1_shift3 (positions_6nt_m1)				; positions_6nt_m1; m=0 (reference); ncol1=11; shift=3; ncol=14; ---scAGGACCtgg ; Alignment reference a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884
positions_6nt_m1_shift3 (positions_6nt_m1)				; positions_6nt_m1 versus positions_6nt_m1; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---scAGGACCtgg ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884
oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)				; positions_6nt_m1 versus oligos_6nt_mkv4_m1; m=2/4; ncol2=13; w=-1; offset=-1; strand=D; shift=2; score=0.812118; --ksCAGGACCTgs ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833
oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)				; positions_6nt_m1 versus oligos_7nt_mkv5_m1; m=3/4; ncol2=16; w=-3; offset=-3; strand=D; shift=0; score=0.647377; sbtcCAGGACCTGg ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_6nt_m1 versus positions_7nt_m1; m=4/4; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.594098; -bsCCAGGACcy-- ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 0 0 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 0 0 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 0 0 t 0 1257 1214 160 196 135 165 159 89 148 797 1240 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift4 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=11; shift=4; ncol=15; ----ssCCCGCCCss ; Alignment reference a 0 0 0 0 1041 1077 236 277 18 73 169 224 151 969 844 c 0 0 0 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 2887 g 0 0 0 0 2375 2174 800 769 169 7369 226 788 575 2633 2798 t 0 0 0 0 1127 1164 329 159 27 2 212 138 106 1033 916
positions_6nt_m2_shift4 (positions_6nt_m2)				; positions_6nt_m2 versus positions_6nt_m2; m=1/5; ncol2=11; w=0; offset=0; strand=D; shift=4; score= 1; ----ssCCCGCCCss ; cor=; Ncor= a 0 0 0 0 1041 1077 236 277 18 73 169 224 151 969 844 c 0 0 0 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 2887 g 0 0 0 0 2375 2174 800 769 169 7369 226 788 575 2633 2798 t 0 0 0 0 1127 1164 329 159 27 2 212 138 106 1033 916
positions_7nt_m2_shift3 (positions_7nt_m2)				; positions_6nt_m2 versus positions_7nt_m2; m=2/5; ncol2=11; w=-1; offset=-1; strand=D; shift=3; score=0.754531; ---ssCCCCGCCss- ; cor=; Ncor= a 0 0 0 1195 1256 215 358 329 17 74 172 124 1034 854 0 c 0 0 0 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 0 g 0 0 0 2838 2635 429 1374 918 228 7844 193 577 3097 2354 0 t 0 0 0 1056 1417 223 211 178 18 8 174 71 1083 1015 0
positions_6nt_m4_rc_shift5 (positions_6nt_m4_rc)				; positions_6nt_m2 versus positions_6nt_m4_rc; m=3/5; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.691941; -----csTCGCCCss ; cor=; Ncor= a 0 0 0 0 0 262 234 3 0 0 21 50 18 355 250 c 0 0 0 0 0 767 701 0 1854 0 1793 1552 1684 635 610 g 0 0 0 0 0 455 678 3 0 1854 18 232 148 511 697 t 0 0 0 0 0 370 241 1848 0 0 22 20 4 353 297
oligos_7nt_mkv5_m4_shift6 (oligos_7nt_mkv5_m4)				; positions_6nt_m2 versus oligos_7nt_mkv5_m4; m=4/5; ncol2=11; w=0; offset=2; strand=D; shift=6; score=0.588419; ------ssCGCCCCC ; cor=; Ncor= a 0 0 0 0 0 0 1075 987 3 53 220 223 368 254 136 c 0 0 0 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 6386 g 0 0 0 0 0 0 2260 2456 7 7091 199 786 1374 795 551 t 0 0 0 0 0 0 918 835 13 3 297 213 239 153 75
oligos_7nt_mkv5_m5_rc_shift0 (oligos_7nt_mkv5_m5_rc)				; positions_6nt_m2 versus oligos_7nt_mkv5_m5_rc; m=5/5; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.401047; ssCGCTCCCGss--- ; cor=; Ncor= a 570 437 161 84 44 86 34 48 139 134 500 592 0 0 0 c 1526 1708 3346 316 3676 390 3572 3667 3508 225 1543 1554 0 0 0 g 1168 1208 272 3345 132 343 200 127 152 3378 1457 1182 0 0 0 t 654 565 139 173 66 3099 112 76 119 181 418 590 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---ssCGCCCCCss ; Alignment reference a 0 0 0 1075 987 3 53 220 223 368 254 136 1185 883 c 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 6386 1852 2957 g 0 0 0 2260 2456 7 7091 199 786 1374 795 551 3012 2483 t 0 0 0 918 835 13 3 297 213 239 153 75 1099 825
oligos_7nt_mkv5_m4_shift3 (oligos_7nt_mkv5_m4)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m4; m=1/7; ncol2=11; w=0; offset=0; strand=D; shift=3; score= 1; ---ssCGCCCCCss ; cor=; Ncor= a 0 0 0 1075 987 3 53 220 223 368 254 136 1185 883 c 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 6386 1852 2957 g 0 0 0 2260 2456 7 7091 199 786 1374 795 551 3012 2483 t 0 0 0 918 835 13 3 297 213 239 153 75 1099 825
oligos_7nt_mkv5_m5_rc_shift3 (oligos_7nt_mkv5_m5_rc)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m5_rc; m=2/7; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.753654; ---ssCGCTCCCGs ; cor=; Ncor= a 0 0 0 570 437 161 84 44 86 34 48 139 134 500 c 0 0 0 1526 1708 3346 316 3676 390 3572 3667 3508 225 1543 g 0 0 0 1168 1208 272 3345 132 343 200 127 152 3378 1457 t 0 0 0 654 565 139 173 66 3099 112 76 119 181 418
oligos_7nt_mkv5_m3_rc_shift3 (oligos_7nt_mkv5_m3_rc)				; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m3_rc; m=3/7; ncol2=12; w=0; offset=0; strand=R; shift=3; score=0.667432; ---ssCGCAGCCGs ; cor=; Ncor= a 0 0 0 627 484 185 91 66 2973 27 50 154 145 470 c 0 0 0 1340 1899 3623 222 3860 685 94 3943 3765 283 2017 g 0 0 0 1640 1240 240 3769 237 349 4063 172 159 3623 1295 t 0 0 0 600 584 159 125 44 200 23 42 129 156 425
positions_6nt_m5_shift3 (positions_6nt_m5)				; oligos_7nt_mkv5_m4 versus positions_6nt_m5; m=4/7; ncol2=10; w=0; offset=0; strand=D; shift=3; score=0.662781; ---ssCGTCCCss- ; cor=; Ncor= a 0 0 0 339 441 0 1 6 110 147 24 363 352 0 c 0 0 0 1014 699 2367 0 0 2178 1833 2091 877 695 0 g 0 0 0 643 906 1 2368 0 53 347 233 710 962 0 t 0 0 0 373 323 1 0 2363 28 42 21 419 360 0
positions_6nt_m2_shift1 (positions_6nt_m2)				; oligos_7nt_mkv5_m4 versus positions_6nt_m2; m=5/7; ncol2=11; w=-2; offset=-2; strand=D; shift=1; score=0.588419; -ssCCCGCCCss-- ; cor=; Ncor= a 0 1041 1077 236 277 18 73 169 224 151 969 844 0 0 c 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 2887 0 0 g 0 2375 2174 800 769 169 7369 226 788 575 2633 2798 0 0 t 0 1127 1164 329 159 27 2 212 138 106 1033 916 0 0
positions_6nt_m4_rc_shift2 (positions_6nt_m4_rc)				; oligos_7nt_mkv5_m4 versus positions_6nt_m4_rc; m=6/7; ncol2=10; w=-1; offset=-1; strand=R; shift=2; score=0.573133; --csTCGCCCss-- ; cor=; Ncor= a 0 0 262 234 3 0 0 21 50 18 355 250 0 0 c 0 0 767 701 0 1854 0 1793 1552 1684 635 610 0 0 g 0 0 455 678 3 0 1854 18 232 148 511 697 0 0 t 0 0 370 241 1848 0 0 22 20 4 353 297 0 0
positions_7nt_m2_shift0 (positions_7nt_m2)				; oligos_7nt_mkv5_m4 versus positions_7nt_m2; m=7/7; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.50498; ssCCCCGCCss--- ; cor=; Ncor= a 1195 1256 215 358 329 17 74 172 124 1034 854 0 0 0 c 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 0 0 0 g 2838 2635 429 1374 918 228 7844 193 577 3097 2354 0 0 0 t 1056 1417 223 211 178 18 8 174 71 1083 1015 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m4_shift2 (positions_6nt_m4)				; positions_6nt_m4; m=0 (reference); ncol1=10; shift=2; ncol=12; --ssGGGCGAsg ; Alignment reference a 0 0 297 353 4 20 22 0 0 1848 241 370 c 0 0 697 511 148 232 18 1854 0 3 678 455 g 0 0 610 635 1684 1552 1793 0 1854 0 701 767 t 0 0 250 355 18 50 21 0 0 3 234 262
positions_6nt_m4_shift2 (positions_6nt_m4)				; positions_6nt_m4 versus positions_6nt_m4; m=1/3; ncol2=10; w=0; offset=0; strand=D; shift=2; score= 1; --ssGGGCGAsg ; cor=; Ncor= a 0 0 297 353 4 20 22 0 0 1848 241 370 c 0 0 697 511 148 232 18 1854 0 3 678 455 g 0 0 610 635 1684 1552 1793 0 1854 0 701 767 t 0 0 250 355 18 50 21 0 0 3 234 262
positions_6nt_m2_rc_shift2 (positions_6nt_m2_rc)				; positions_6nt_m4 versus positions_6nt_m2_rc; m=2/3; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.691941; --ssGGGCGGGs ; cor=; Ncor= a 0 0 916 1033 106 138 212 2 27 159 329 1164 c 0 0 2798 2633 575 788 226 7369 169 769 800 2174 g 0 0 2887 2810 6613 6295 6838 1 7231 6240 6080 3030 t 0 0 844 969 151 224 169 73 18 277 236 1077
oligos_7nt_mkv5_m4_rc_shift0 (oligos_7nt_mkv5_m4_rc)				; positions_6nt_m4 versus oligos_7nt_mkv5_m4_rc; m=3/3; ncol2=11; w=-2; offset=-2; strand=R; shift=0; score=0.573133; ssGGGGGCGss- ; cor=; Ncor= a 825 1099 75 153 239 213 297 3 13 835 918 0 c 2483 3012 551 795 1374 786 199 7091 7 2456 2260 0 g 2957 1852 6386 5946 5167 5926 6432 1 7125 2870 2895 0 t 883 1185 136 254 368 223 220 53 3 987 1075 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)				; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; csCGGCTCss ; Alignment reference a 283 276 0 0 44 24 14 19 357 253 c 1096 675 2238 6 7 2160 0 2214 895 763 g 517 883 0 2232 2145 44 201 5 599 860 t 342 404 0 0 42 10 2023 0 387 362
oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)				; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m5; m=1/3; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; csCGGCTCss ; cor=; Ncor= a 283 276 0 0 44 24 14 19 357 253 c 1096 675 2238 6 7 2160 0 2214 895 763 g 517 883 0 2232 2145 44 201 5 599 860 t 342 404 0 0 42 10 2023 0 387 362
oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)				; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m3; m=2/3; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.594428; ssCGGCTGCG ; cor=; Ncor= a 586 425 156 129 42 23 200 44 125 159 c 1362 1295 3623 159 172 4063 349 237 3769 240 g 1608 2017 283 3765 3943 94 685 3860 222 3623 t 651 470 145 154 50 27 2973 66 91 185
oligos_6nt_mkv4_m2_rc_shift2 (oligos_6nt_mkv4_m2_rc)				; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m2_rc; m=3/3; ncol2=11; w=0; offset=2; strand=R; shift=2; score=0.458139; --ssGCTCCG ; cor=; Ncor= a 0 0 727 869 112 153 263 92 47 63 c 0 0 2187 1865 224 4774 317 4724 4897 54 g 0 0 1666 1793 4796 220 730 395 252 5109 t 0 0 692 745 140 125 3962 61 76 46

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=16; shift=0; ncol=16; sbtcCAGGACCTGgss ; Alignment reference a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 847 875 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 1144 1017 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 1157 1068 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398 602 790
oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m1; m=1/4; ncol2=16; w=0; offset=0; strand=D; shift=0; score= 1; sbtcCAGGACCTGgss ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 274 454 847 875 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 376 665 1144 1017 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 2695 2233 1157 1068 t 627 1031 1801 452 332 94 70 71 485 98 93 3214 405 398 602 790
oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)				; oligos_7nt_mkv5_m1 versus oligos_6nt_mkv4_m1; m=2/4; ncol2=13; w=0; offset=2; strand=D; shift=2; score=0.78796; --ksCAGGACCTgss- ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 625 992 1208 0 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 975 1421 1572 0 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 2706 2021 1534 0 t 0 0 1374 967 210 112 73 85 661 130 155 4177 961 833 953 0
positions_6nt_m1_shift3 (positions_6nt_m1)				; oligos_7nt_mkv5_m1 versus positions_6nt_m1; m=3/4; ncol2=11; w=0; offset=3; strand=D; shift=3; score=0.647377; ---scAGGACCtgg-- ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 909 981 0 0 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 1114 1210 0 0 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 1810 1825 0 0 t 0 0 0 988 779 31 152 148 98 95 77 3193 1067 884 0 0
positions_7nt_m1_shift1 (positions_7nt_m1)				; oligos_7nt_mkv5_m1 versus positions_7nt_m1; m=4/4; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.597879; -bsCCAGGACcy---- ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 0 0 0 0 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 0 0 0 0 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 0 0 0 0 t 0 1257 1214 160 196 135 165 159 89 148 797 1240 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; ssCGGCTGCGss ; Alignment reference a 586 425 156 129 42 23 200 44 125 159 584 600 c 1362 1295 3623 159 172 4063 349 237 3769 240 1240 1640 g 1608 2017 283 3765 3943 94 685 3860 222 3623 1899 1340 t 651 470 145 154 50 27 2973 66 91 185 484 627
oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m3; m=1/6; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ssCGGCTGCGss ; cor=; Ncor= a 586 425 156 129 42 23 200 44 125 159 584 600 c 1362 1295 3623 159 172 4063 349 237 3769 240 1240 1640 g 1608 2017 283 3765 3943 94 685 3860 222 3623 1899 1340 t 651 470 145 154 50 27 2973 66 91 185 484 627
oligos_7nt_mkv5_m2_rc_shift0 (oligos_7nt_mkv5_m2_rc)				; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m2_rc; m=2/6; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.825027; ssCGCCTGCGss ; cor=; Ncor= a 456 385 143 113 41 78 113 22 85 95 444 498 c 1095 1171 2823 120 2960 3001 330 208 2872 217 1274 1210 g 1139 1258 184 2891 207 151 232 2965 227 2814 1090 1043 t 568 444 108 134 50 28 2583 63 74 132 450 507
oligos_7nt_mkv5_m5_shift0 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m5; m=3/6; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.703445; ssCGGGAGCGss ; cor=; Ncor= a 590 418 181 119 76 112 3099 66 173 139 565 654 c 1182 1457 3378 152 127 200 343 132 3345 272 1208 1168 g 1554 1543 225 3508 3667 3572 390 3676 316 3346 1708 1526 t 592 500 134 139 48 34 86 44 84 161 437 570
oligos_7nt_mkv5_m4_rc_shift1 (oligos_7nt_mkv5_m4_rc)				; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m4_rc; m=4/6; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.667432; -ssGGGGGCGss ; cor=; Ncor= a 0 825 1099 75 153 239 213 297 3 13 835 918 c 0 2483 3012 551 795 1374 786 199 7091 7 2456 2260 g 0 2957 1852 6386 5946 5167 5926 6432 1 7125 2870 2895 t 0 883 1185 136 254 368 223 220 53 3 987 1075
positions_7nt_m2_rc_shift1 (positions_7nt_m2_rc)				; oligos_7nt_mkv5_m3 versus positions_7nt_m2_rc; m=5/6; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.650824; -ssGGCGGGGss ; cor=; Ncor= a 0 1015 1083 71 174 8 18 178 211 223 1417 1056 c 0 2354 3097 577 193 7844 228 918 1374 429 2635 2838 g 0 3704 2713 7155 7388 1 7664 6502 5984 7060 2619 2838 t 0 854 1034 124 172 74 17 329 358 215 1256 1195
oligos_6nt_mkv4_m5_shift0 (oligos_6nt_mkv4_m5)				; oligos_7nt_mkv5_m3 versus oligos_6nt_mkv4_m5; m=6/6; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.594428; csCGGCTCss-- ; cor=; Ncor= a 283 276 0 0 44 24 14 19 357 253 0 0 c 1096 675 2238 6 7 2160 0 2214 895 763 0 0 g 517 883 0 2232 2145 44 201 5 599 860 0 0 t 342 404 0 0 42 10 2023 0 387 362 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m2_shift1 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssGCGGAGCss ; Alignment reference a 0 851 596 200 46 76 61 3962 125 140 745 692 c 0 1848 2367 726 5109 252 395 730 220 4796 1793 1666 g 0 1878 1562 4075 54 4897 4724 317 4774 224 1865 2187 t 0 695 747 271 63 47 92 263 153 112 869 727
oligos_6nt_mkv4_m2_shift1 (oligos_6nt_mkv4_m2)				; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m2; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -ssGCGGAGCss ; cor=; Ncor= a 0 851 596 200 46 76 61 3962 125 140 745 692 c 0 1848 2367 726 5109 252 395 730 220 4796 1793 1666 g 0 1878 1562 4075 54 4897 4724 317 4774 224 1865 2187 t 0 695 747 271 63 47 92 263 153 112 869 727
positions_7nt_m2_rc_shift0 (positions_7nt_m2_rc)				; oligos_6nt_mkv4_m2 versus positions_7nt_m2_rc; m=2/3; ncol2=11; w=-1; offset=-1; strand=R; shift=0; score=0.618031; ssGGCGGGGss- ; cor=; Ncor= a 1015 1083 71 174 8 18 178 211 223 1417 1056 0 c 2354 3097 577 193 7844 228 918 1374 429 2635 2838 0 g 3704 2713 7155 7388 1 7664 6502 5984 7060 2619 2838 0 t 854 1034 124 172 74 17 329 358 215 1256 1195 0
oligos_6nt_mkv4_m5_rc_shift4 (oligos_6nt_mkv4_m5_rc)				; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m5_rc; m=3/3; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.458139; ----ssGAGCCG ; cor=; Ncor= a 0 0 0 0 362 387 0 2023 10 42 0 0 c 0 0 0 0 860 599 5 201 44 2145 2232 0 g 0 0 0 0 763 895 2214 0 2160 7 6 2238 t 0 0 0 0 253 357 19 14 24 44 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_7nt_m1; m=0 (reference); ncol1=11; shift=1; ncol=12; -bsCCAGGACcy ; Alignment reference a 0 940 981 287 118 4089 77 85 4661 43 935 743 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 t 0 1257 1214 160 196 135 165 159 89 148 797 1240
positions_7nt_m1_shift1 (positions_7nt_m1)				; positions_7nt_m1 versus positions_7nt_m1; m=1/5; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -bsCCAGGACcy ; cor=; Ncor= a 0 940 981 287 118 4089 77 85 4661 43 935 743 c 0 1341 1234 4083 4243 277 149 236 74 4623 1931 1693 g 0 1321 1430 329 302 358 4468 4379 35 45 1196 1183 t 0 1257 1214 160 196 135 165 159 89 148 797 1240
positions_6nt_m3_shift1 (positions_6nt_m3)				; positions_7nt_m1 versus positions_6nt_m3; m=2/5; ncol2=10; w=0; offset=0; strand=D; shift=1; score=0.661093; -ssCCCGGAss- ; cor=; Ncor= a 0 367 436 17 32 0 0 0 2202 447 387 0 c 0 686 590 2158 1986 2196 8 10 0 674 705 0 g 0 746 680 25 183 6 2194 2156 0 824 780 0 t 0 403 496 2 1 0 0 36 0 257 330 0
oligos_6nt_mkv4_m1_shift2 (oligos_6nt_mkv4_m1)				; positions_7nt_m1 versus oligos_6nt_mkv4_m1; m=3/5; ncol2=13; w=0; offset=1; strand=D; shift=2; score=0.62193; --ksCAGGACCT ; cor=; Ncor= a 0 0 978 889 274 4826 95 88 4179 134 98 189 c 0 0 1280 2091 4542 114 75 201 225 4817 4906 697 g 0 0 1635 1320 241 215 5024 4893 202 186 108 204 t 0 0 1374 967 210 112 73 85 661 130 155 4177
oligos_7nt_mkv5_m1_shift0 (oligos_7nt_mkv5_m1)				; positions_7nt_m1 versus oligos_7nt_mkv5_m1; m=4/5; ncol2=16; w=-1; offset=-1; strand=D; shift=0; score=0.597879; sbtcCAGGACCT ; cor=; Ncor= a 606 702 476 373 396 3331 78 70 2942 87 58 108 c 1500 1041 638 2323 2647 119 65 137 156 3407 3491 307 g 1017 976 835 602 375 206 3537 3472 167 158 108 121 t 627 1031 1801 452 332 94 70 71 485 98 93 3214
positions_6nt_m1_shift3 (positions_6nt_m1)				; positions_7nt_m1 versus positions_6nt_m1; m=5/5; ncol2=11; w=0; offset=2; strand=D; shift=3; score=0.594098; ---scAGGACCt ; cor=; Ncor= a 0 0 0 905 898 4655 68 46 4780 64 188 374 c 0 0 0 1757 2140 138 102 120 12 4693 4473 1023 g 0 0 0 1250 1083 76 4578 4586 10 48 162 310 t 0 0 0 988 779 31 152 148 98 95 77 3193

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m2_shift2 (positions_7nt_m2)				; positions_7nt_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --ssCCCCGCCss ; Alignment reference a 0 0 1195 1256 215 358 329 17 74 172 124 1034 854 c 0 0 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 g 0 0 2838 2635 429 1374 918 228 7844 193 577 3097 2354 t 0 0 1056 1417 223 211 178 18 8 174 71 1083 1015
positions_7nt_m2_shift2 (positions_7nt_m2)				; positions_7nt_m2 versus positions_7nt_m2; m=1/6; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --ssCCCCGCCss ; cor=; Ncor= a 0 0 1195 1256 215 358 329 17 74 172 124 1034 854 c 0 0 2838 2619 7060 5984 6502 7664 1 7388 7155 2713 3704 g 0 0 2838 2635 429 1374 918 228 7844 193 577 3097 2354 t 0 0 1056 1417 223 211 178 18 8 174 71 1083 1015
positions_6nt_m2_shift3 (positions_6nt_m2)				; positions_7nt_m2 versus positions_6nt_m2; m=2/6; ncol2=11; w=0; offset=1; strand=D; shift=3; score=0.754531; ---ssCCCGCCCs ; cor=; Ncor= a 0 0 0 1041 1077 236 277 18 73 169 224 151 969 c 0 0 0 2902 3030 6080 6240 7231 1 6838 6295 6613 2810 g 0 0 0 2375 2174 800 769 169 7369 226 788 575 2633 t 0 0 0 1127 1164 329 159 27 2 212 138 106 1033
oligos_7nt_mkv5_m3_rc_shift2 (oligos_7nt_mkv5_m3_rc)				; positions_7nt_m2 versus oligos_7nt_mkv5_m3_rc; m=3/6; ncol2=12; w=0; offset=0; strand=R; shift=2; score=0.650824; --ssCGCAGCCGs ; cor=; Ncor= a 0 0 627 484 185 91 66 2973 27 50 154 145 470 c 0 0 1340 1899 3623 222 3860 685 94 3943 3765 283 2017 g 0 0 1640 1240 240 3769 237 349 4063 172 159 3623 1295 t 0 0 600 584 159 125 44 200 23 42 129 156 425
oligos_6nt_mkv4_m2_rc_shift1 (oligos_6nt_mkv4_m2_rc)				; positions_7nt_m2 versus oligos_6nt_mkv4_m2_rc; m=4/6; ncol2=11; w=-1; offset=-1; strand=R; shift=1; score=0.618031; -ssGCTCCGCss- ; cor=; Ncor= a 0 727 869 112 153 263 92 47 63 271 747 695 0 c 0 2187 1865 224 4774 317 4724 4897 54 4075 1562 1878 0 g 0 1666 1793 4796 220 730 395 252 5109 726 2367 1848 0 t 0 692 745 140 125 3962 61 76 46 200 596 851 0
oligos_6nt_mkv4_m4_rc_shift0 (oligos_6nt_mkv4_m4_rc)				; positions_7nt_m2 versus oligos_6nt_mkv4_m4_rc; m=5/6; ncol2=13; w=-2; offset=-2; strand=R; shift=0; score=0.604272; cstGCCCTGCcss ; cor=; Ncor= a 376 373 163 35 37 63 36 92 38 62 223 407 352 c 1042 1028 470 104 2312 2200 2349 171 96 2265 1679 927 849 g 621 698 286 2256 54 155 68 149 2275 72 404 642 768 t 447 387 1567 91 83 68 33 2074 77 87 180 510 517
oligos_7nt_mkv5_m4_shift5 (oligos_7nt_mkv5_m4)				; positions_7nt_m2 versus oligos_7nt_mkv5_m4; m=6/6; ncol2=11; w=0; offset=3; strand=D; shift=5; score=0.50498; -----ssCGCCCC ; cor=; Ncor= a 0 0 0 0 0 1075 987 3 53 220 223 368 254 c 0 0 0 0 0 2895 2870 7125 1 6432 5926 5167 5946 g 0 0 0 0 0 2260 2456 7 7091 199 786 1374 795 t 0 0 0 0 0 918 835 13 3 297 213 239 153

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m5_shift3 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=12; shift=3; ncol=15; ---ssCGGGAGCGss ; Alignment reference a 0 0 0 590 418 181 119 76 112 3099 66 173 139 565 654 c 0 0 0 1182 1457 3378 152 127 200 343 132 3345 272 1208 1168 g 0 0 0 1554 1543 225 3508 3667 3572 390 3676 316 3346 1708 1526 t 0 0 0 592 500 134 139 48 34 86 44 84 161 437 570
oligos_7nt_mkv5_m5_shift3 (oligos_7nt_mkv5_m5)				; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m5; m=1/4; ncol2=12; w=0; offset=0; strand=D; shift=3; score= 1; ---ssCGGGAGCGss ; cor=; Ncor= a 0 0 0 590 418 181 119 76 112 3099 66 173 139 565 654 c 0 0 0 1182 1457 3378 152 127 200 343 132 3345 272 1208 1168 g 0 0 0 1554 1543 225 3508 3667 3572 390 3676 316 3346 1708 1526 t 0 0 0 592 500 134 139 48 34 86 44 84 161 437 570
oligos_7nt_mkv5_m4_rc_shift4 (oligos_7nt_mkv5_m4_rc)				; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m4_rc; m=2/4; ncol2=11; w=0; offset=1; strand=R; shift=4; score=0.753654; ----ssGGGGGCGss ; cor=; Ncor= a 0 0 0 0 825 1099 75 153 239 213 297 3 13 835 918 c 0 0 0 0 2483 3012 551 795 1374 786 199 7091 7 2456 2260 g 0 0 0 0 2957 1852 6386 5946 5167 5926 6432 1 7125 2870 2895 t 0 0 0 0 883 1185 136 254 368 223 220 53 3 987 1075
oligos_7nt_mkv5_m3_shift3 (oligos_7nt_mkv5_m3)				; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m3; m=3/4; ncol2=12; w=0; offset=0; strand=D; shift=3; score=0.703445; ---ssCGGCTGCGss ; cor=; Ncor= a 0 0 0 586 425 156 129 42 23 200 44 125 159 584 600 c 0 0 0 1362 1295 3623 159 172 4063 349 237 3769 240 1240 1640 g 0 0 0 1608 2017 283 3765 3943 94 685 3860 222 3623 1899 1340 t 0 0 0 651 470 145 154 50 27 2973 66 91 185 484 627
positions_6nt_m2_rc_shift0 (positions_6nt_m2_rc)				; oligos_7nt_mkv5_m5 versus positions_6nt_m2_rc; m=4/4; ncol2=11; w=-3; offset=-3; strand=R; shift=0; score=0.401047; ssGGGCGGGss---- ; cor=; Ncor= a 916 1033 106 138 212 2 27 159 329 1164 1127 0 0 0 0 c 2798 2633 575 788 226 7369 169 769 800 2174 2375 0 0 0 0 g 2887 2810 6613 6295 6838 1 7231 6240 6080 3030 2902 0 0 0 0 t 844 969 151 224 169 73 18 277 236 1077 1041 0 0 0 0