One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/05/18/peak-motifs.2026-05-18.125704_2026-05-18.125704_Tyn09B/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/2026/05/18/peak-motifs.2026-05-18.125704_2026-05-18.125704_Tyn09B/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift4 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift4 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=12; shift=4; ncol=16; ----wwTCATTCAAww ; Alignment reference a 0 0 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 c 0 0 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 g 0 0 0 0 344 423 103 15 40 123 88 14 35 57 354 297 t 0 0 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528

oligos_6nt_test_vs_ctrl_m3_shift4 (oligos_6nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/4; ncol2=12; w=0; offset=0; strand=D; shift=4; score= 1; ----wwTCATTCAAww ; cor=; Ncor= a 0 0 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 c 0 0 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 g 0 0 0 0 344 423 103 15 40 123 88 14 35 57 354 297 t 0 0 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528

oligos_7nt_test_vs_ctrl_m4_shift3 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4; m=2/4; ncol2=13; w=-1; offset=-1; strand=D; shift=3; score=0.773608; ---hwTTCATTCATww ; cor=; Ncor= a 0 0 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 c 0 0 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 g 0 0 0 289 202 43 48 90 37 23 24 89 38 33 234 279 t 0 0 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355

oligos_6nt_test_vs_ctrl_m1_rc_shift1 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=3/4; ncol2=14; w=-3; offset=-3; strand=R; shift=1; score=0.604742; -wwaAATCAATCAaw- ; cor=; Ncor= a 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 c 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 g 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 t 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2; m=4/4; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=0.584219; wwhaAATCAATCAAww ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=13; shift=1; ncol=14; -wdCTAGCTAGCww ; Alignment reference a 0 1821 1137 359 457 2888 423 170 451 2945 446 184 906 1937 c 0 313 281 2473 85 64 88 3002 69 48 90 2968 249 310 g 0 303 889 158 68 86 2477 55 38 79 2442 66 211 298 t 0 989 1119 436 2816 388 438 199 2868 354 448 208 2060 881

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=1; score= 1; -wdCTAGCTAGCww ; cor=; Ncor= a 0 1821 1137 359 457 2888 423 170 451 2945 446 184 906 1937 c 0 313 281 2473 85 64 88 3002 69 48 90 2968 249 310 g 0 303 889 158 68 86 2477 55 38 79 2442 66 211 298 t 0 989 1119 436 2816 388 438 199 2868 354 448 208 2060 881

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_6nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m3; m=2/2; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.888374; wwGCTAGCTAGCww ; cor=; Ncor= a 520 1137 201 168 202 1621 165 85 194 1604 225 176 468 1050 c 137 112 47 1414 27 18 31 1574 22 21 48 1431 137 149 g 149 137 1431 48 21 22 1574 31 19 27 1415 47 112 136 t 1049 469 176 225 1605 194 85 165 1620 203 167 201 1138 520

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; wwGCTAGCTAGCww ; Alignment reference a 520 1137 201 168 202 1621 165 85 194 1604 225 176 468 1050 c 137 112 47 1414 27 18 31 1574 22 21 48 1431 137 149 g 149 137 1431 48 21 22 1574 31 19 27 1415 47 112 136 t 1049 469 176 225 1605 194 85 165 1620 203 167 201 1138 520

oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; wwGCTAGCTAGCww ; cor=; Ncor= a 520 1137 201 168 202 1621 165 85 194 1604 225 176 468 1050 c 137 112 47 1414 27 18 31 1574 22 21 48 1431 137 149 g 149 137 1431 48 21 22 1574 31 19 27 1415 47 112 136 t 1049 469 176 225 1605 194 85 165 1620 203 167 201 1138 520

oligos_6nt_test_vs_ctrl_m4_shift1 (oligos_6nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m4; m=2/2; ncol2=13; w=0; offset=1; strand=D; shift=1; score=0.888374; -wdCTAGCTAGCww ; cor=; Ncor= a 0 1821 1137 359 457 2888 423 170 451 2945 446 184 906 1937 c 0 313 281 2473 85 64 88 3002 69 48 90 2968 249 310 g 0 303 889 158 68 86 2477 55 38 79 2442 66 211 298 t 0 989 1119 436 2816 388 438 199 2868 354 448 208 2060 881

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift3 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=19; shift=3; ncol=22; ---haAACAAACAAAaAAAwww ; Alignment reference a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 1410 1514 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 274 239 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 203 219 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720 777 692

oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/5; ncol2=19; w=0; offset=0; strand=D; shift=3; score= 1; ---haAACAAACAAAaAAAwww ; cor=; Ncor= a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 1410 1514 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 274 239 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 203 219 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720 777 692

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=2/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.868442; ---wwmACAAACAAAAAAww-- ; cor=; Ncor= a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 0 0 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 0 0 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 0 0 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855 0 0

oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5; m=3/5; ncol2=20; w=0; offset=0; strand=D; shift=3; score=0.820974; ---haArCAArCAAACAAACAa ; cor=; Ncor= a 0 0 0 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 1326 c 0 0 0 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 182 g 0 0 0 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 106 t 0 0 0 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189 372

oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5; m=4/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.774555; ---wwAgCAAgCAAAAAAww-- ; cor=; Ncor= a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 0 0 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 0 0 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 0 0 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834 0 0

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=5/5; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.470929; wwhaAATCAATCAAwww----- ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 0 0 0 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 0 0 0 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 0 0 0 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift1 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=13; shift=1; ncol=14; -hwTTCATTCATww ; Alignment reference a 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 c 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 g 0 289 202 43 48 90 37 23 24 89 38 33 234 279 t 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355

oligos_7nt_test_vs_ctrl_m4_shift1 (oligos_7nt_test_vs_ctrl_m4)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/4; ncol2=13; w=0; offset=0; strand=D; shift=1; score= 1; -hwTTCATTCATww ; cor=; Ncor= a 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 c 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 g 0 289 202 43 48 90 37 23 24 89 38 33 234 279 t 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355

oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3; m=2/4; ncol2=12; w=0; offset=1; strand=D; shift=2; score=0.773608; --wwTCATTCAAww ; cor=; Ncor= a 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 c 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 g 0 0 344 423 103 15 40 123 88 14 35 57 354 297 t 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528

oligos_6nt_test_vs_ctrl_m1_shift2 (oligos_6nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=3/4; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.582794; --wtTGATTGATTt ; cor=; Ncor= a 0 0 1951 977 250 283 3600 144 139 310 3689 216 319 924 c 0 0 285 378 84 57 77 82 65 57 69 64 90 207 g 0 0 441 376 66 3353 72 68 44 3319 48 90 109 808 t 0 0 1314 2260 3591 298 242 3697 3743 305 185 3621 3473 2052

oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2_rc; m=4/4; ncol2=17; w=-1; offset=-1; strand=R; shift=0; score=0.563686; wwwTTGATTGATTt ; cor=; Ncor= a 913 920 809 153 161 209 2268 133 114 207 2359 177 242 402 c 212 219 91 56 43 41 68 41 39 47 59 35 67 96 g 256 604 130 58 45 2241 71 44 47 2226 70 61 60 423 t 1329 967 1680 2443 2461 219 303 2492 2510 230 222 2437 2341 1789

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift3 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=17; shift=3; ncol=20; ---wwAgCAAgCAAAAAAww ; Alignment reference a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834

oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/6; ncol2=17; w=0; offset=0; strand=D; shift=3; score= 1; ---wwAgCAAgCAAAAAAww ; cor=; Ncor= a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2; m=2/6; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.868653; ---wwmACAAACAAAAAAww ; cor=; Ncor= a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855

oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=3/6; ncol2=19; w=0; offset=0; strand=D; shift=3; score=0.774555; ---haAACAAACAAAaAAAw ; cor=; Ncor= a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720

oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=4/6; ncol2=20; w=0; offset=0; strand=D; shift=3; score=0.727567; ---haArCAArCAAACAAAC ; cor=; Ncor= a 0 0 0 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 c 0 0 0 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 g 0 0 0 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 t 0 0 0 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=5/6; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.537278; wwhaAATCAATCAAwww--- ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 0 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 0 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 0 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0 0

oligos_6nt_test_vs_ctrl_m1_rc_shift1 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1_rc; m=6/6; ncol2=14; w=-2; offset=-2; strand=R; shift=1; score=0.450787; -wwaAATCAATCAaw----- ; cor=; Ncor= a 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 0 0 0 0 c 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 0 0 0 0 g 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 0 0 0 0 t 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift1 ; 9 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift1 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=1; ncol=18; -wwhaAATCAATCAAwww ; Alignment reference a 0 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 c 0 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 g 0 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 t 0 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913

oligos_7nt_test_vs_ctrl_m2_shift1 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/8; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -wwhaAATCAATCAAwww ; cor=; Ncor= a 0 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 c 0 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 g 0 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 t 0 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913

oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/8; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.796061; --wwaAATCAATCAaw-- ; cor=; Ncor= a 0 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 0 c 0 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 0 g 0 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 0 t 0 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0 0

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5; m=3/8; ncol2=20; w=-1; offset=-1; strand=D; shift=0; score=0.640141; haArCAArCAAACAAACA ; cor=; Ncor= a 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 c 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 g 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 t 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189

oligos_6nt_test_vs_ctrl_m3_shift5 (oligos_6nt_test_vs_ctrl_m3)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3; m=4/8; ncol2=12; w=0; offset=4; strand=D; shift=5; score=0.584219; -----wwTCATTCAAww- ; cor=; Ncor= a 0 0 0 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 0 c 0 0 0 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 0 g 0 0 0 0 0 344 423 103 15 40 123 88 14 35 57 354 297 0 t 0 0 0 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528 0

oligos_7nt_test_vs_ctrl_m4_rc_shift4 (oligos_7nt_test_vs_ctrl_m4_rc)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4_rc; m=5/8; ncol2=13; w=0; offset=3; strand=R; shift=4; score=0.563686; ----wwATGAATGAAwd- ; cor=; Ncor= a 0 0 0 0 1355 1900 3159 137 398 3197 3306 150 376 3160 3221 1133 1183 0 c 0 0 0 0 279 234 33 38 89 24 23 37 90 48 43 202 289 0 g 0 0 0 0 833 356 68 37 2733 32 46 54 2723 52 73 349 891 0 t 0 0 0 0 993 970 200 3248 240 207 85 3219 271 200 123 1776 1097 0

oligos_6nt_test_vs_ctrl_m5_shift4 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=6/8; ncol2=17; w=0; offset=3; strand=D; shift=4; score=0.537278; ----wwAgCAAgCAAAAA ; cor=; Ncor= a 0 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 c 0 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 g 0 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 t 0 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222

oligos_6nt_test_vs_ctrl_m2_shift4 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=7/8; ncol2=17; w=0; offset=3; strand=D; shift=4; score=0.503033; ----wwmACAAACAAAAA ; cor=; Ncor= a 0 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 c 0 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 g 0 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 t 0 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231

oligos_7nt_test_vs_ctrl_m1_shift4 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=8/8; ncol2=19; w=0; offset=3; strand=D; shift=4; score=0.470929; ----haAACAAACAAAaA ; cor=; Ncor= a 0 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 c 0 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 g 0 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 t 0 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift3 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=3; ncol=20; ---wwmACAAACAAAAAAww ; Alignment reference a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855

oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score= 1; ---wwmACAAACAAAAAAww ; cor=; Ncor= a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855

oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=2/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.868653; ---wwAgCAAgCAAAAAAww ; cor=; Ncor= a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834

oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/5; ncol2=19; w=0; offset=0; strand=D; shift=3; score=0.868442; ---haAACAAACAAAaAAAw ; cor=; Ncor= a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720

oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5; m=4/5; ncol2=20; w=0; offset=0; strand=D; shift=3; score=0.701423; ---haArCAArCAAACAAAC ; cor=; Ncor= a 0 0 0 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 c 0 0 0 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 g 0 0 0 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 t 0 0 0 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260

oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)
; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=5/5; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.503033; wwhaAATCAATCAAwww--- ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 0 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 0 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 0 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=20; shift=0; ncol=20; haArCAArCAAACAAACAaa ; Alignment reference a 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 1326 1127 c 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 182 148 g 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 106 220 t 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189 372 491

oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/6; ncol2=20; w=0; offset=0; strand=D; shift=0; score= 1; haArCAArCAAACAAACAaa ; cor=; Ncor= a 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 1326 1127 c 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 182 148 g 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 106 220 t 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189 372 491

oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=2/6; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.820974; haAACAAACAAAaAAAwww- ; cor=; Ncor= a 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 1410 1514 0 c 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 274 239 0 g 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 203 219 0 t 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720 777 692 0

oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=3/6; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.727567; wwAgCAAgCAAAAAAww--- ; cor=; Ncor= a 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 0 0 0 c 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 0 0 0 g 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 0 0 0 t 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834 0 0 0

oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2; m=4/6; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.701423; wwmACAAACAAAAAAww--- ; cor=; Ncor= a 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 0 0 0 c 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 0 0 0 g 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 0 0 0 t 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855 0 0 0

oligos_7nt_test_vs_ctrl_m2_shift1 (oligos_7nt_test_vs_ctrl_m2)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=5/6; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.640141; -wwhaAATCAATCAAwww-- ; cor=; Ncor= a 0 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 c 0 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 g 0 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 t 0 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0

oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)
; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1_rc; m=6/6; ncol2=14; w=0; offset=2; strand=R; shift=2; score=0.509071; --wwaAATCAATCAaw---- ; cor=; Ncor= a 0 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 0 0 0 c 0 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 0 0 0 g 0 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 0 0 0 t 0 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift5 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift5 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=14; shift=5; ncol=19; -----wtTGATTGATTtww ; Alignment reference a 0 0 0 0 0 1951 977 250 283 3600 144 139 310 3689 216 319 924 1833 1112 c 0 0 0 0 0 285 378 84 57 77 82 65 57 69 64 90 207 385 403 g 0 0 0 0 0 441 376 66 3353 72 68 44 3319 48 90 109 808 427 376 t 0 0 0 0 0 1314 2260 3591 298 242 3697 3743 305 185 3621 3473 2052 1346 2100

oligos_6nt_test_vs_ctrl_m1_shift5 (oligos_6nt_test_vs_ctrl_m1)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/6; ncol2=14; w=0; offset=0; strand=D; shift=5; score= 1; -----wtTGATTGATTtww ; cor=; Ncor= a 0 0 0 0 0 1951 977 250 283 3600 144 139 310 3689 216 319 924 1833 1112 c 0 0 0 0 0 285 378 84 57 77 82 65 57 69 64 90 207 385 403 g 0 0 0 0 0 441 376 66 3353 72 68 44 3319 48 90 109 808 427 376 t 0 0 0 0 0 1314 2260 3591 298 242 3697 3743 305 185 3621 3473 2052 1346 2100

oligos_7nt_test_vs_ctrl_m2_rc_shift3 (oligos_7nt_test_vs_ctrl_m2_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2_rc; m=2/6; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.796061; ---wwwTTGATTGATTtdw ; cor=; Ncor= a 0 0 0 913 920 809 153 161 209 2268 133 114 207 2359 177 242 402 963 840 c 0 0 0 212 219 91 56 43 41 68 41 39 47 59 35 67 96 193 247 g 0 0 0 256 604 130 58 45 2241 71 44 47 2226 70 61 60 423 841 259 t 0 0 0 1329 967 1680 2443 2461 219 303 2492 2510 230 222 2437 2341 1789 713 1364

oligos_6nt_test_vs_ctrl_m3_rc_shift4 (oligos_6nt_test_vs_ctrl_m3_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3_rc; m=3/6; ncol2=12; w=-1; offset=-1; strand=R; shift=4; score=0.604742; ----wwTTGAATGAww--- ; cor=; Ncor= a 0 0 0 0 1528 2169 701 179 136 4036 3222 302 142 3946 1809 1469 0 0 0 c 0 0 0 0 297 354 57 35 14 88 123 40 15 103 423 344 0 0 0 g 0 0 0 0 991 398 125 66 4086 73 122 108 4039 92 448 406 0 0 0 t 0 0 0 0 1537 1432 3470 4073 117 156 886 3903 157 212 1673 2134 0 0 0

oligos_7nt_test_vs_ctrl_m4_shift4 (oligos_7nt_test_vs_ctrl_m4)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=4/6; ncol2=13; w=-1; offset=-1; strand=D; shift=4; score=0.582794; ----hwTTCATTCATww-- ; cor=; Ncor= a 0 0 0 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 0 0 c 0 0 0 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 0 0 g 0 0 0 0 289 202 43 48 90 37 23 24 89 38 33 234 279 0 0 t 0 0 0 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355 0 0

oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5_rc; m=5/6; ncol2=20; w=-4; offset=-4; strand=R; shift=1; score=0.509071; -ttTGTTTGTTTGyTTGyT ; cor=; Ncor= a 0 491 372 189 260 241 102 130 161 240 89 132 165 320 121 189 263 383 199 c 0 220 106 22 74 183 35 12 43 231 31 21 37 702 51 41 59 733 61 g 0 148 182 45 1407 41 58 41 1667 34 41 18 1674 71 45 33 1412 91 66 t 0 1127 1326 1730 245 1521 1791 1803 115 1481 1825 1815 110 893 1769 1723 252 779 1660

oligos_6nt_test_vs_ctrl_m5_rc_shift0 (oligos_6nt_test_vs_ctrl_m5_rc)
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5_rc; m=6/6; ncol2=17; w=-5; offset=-5; strand=R; shift=0; score=0.450787; wwTTTTTTGcTTGcTww-- ; cor=; Ncor= a 834 817 356 222 293 198 120 202 150 365 197 314 291 385 344 825 878 0 0 c 262 342 133 49 61 153 48 37 30 1558 52 50 78 1635 96 243 249 0 0 g 477 279 122 60 347 60 55 38 2339 105 62 78 1964 93 91 239 607 0 0 t 1093 1228 2055 2335 1965 2255 2443 2389 147 638 2355 2224 333 553 2135 1359 932 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m3_shift4 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=12; shift=4; ncol=16; ----wwTCATTCAAww ; Alignment reference a 0 0 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 c 0 0 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 g 0 0 0 0 344 423 103 15 40 123 88 14 35 57 354 297 t 0 0 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528
oligos_6nt_test_vs_ctrl_m3_shift4 (oligos_6nt_test_vs_ctrl_m3)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/4; ncol2=12; w=0; offset=0; strand=D; shift=4; score= 1; ----wwTCATTCAAww ; cor=; Ncor= a 0 0 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 c 0 0 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 g 0 0 0 0 344 423 103 15 40 123 88 14 35 57 354 297 t 0 0 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528
oligos_7nt_test_vs_ctrl_m4_shift3 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4; m=2/4; ncol2=13; w=-1; offset=-1; strand=D; shift=3; score=0.773608; ---hwTTCATTCATww ; cor=; Ncor= a 0 0 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 c 0 0 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 g 0 0 0 289 202 43 48 90 37 23 24 89 38 33 234 279 t 0 0 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355
oligos_6nt_test_vs_ctrl_m1_rc_shift1 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m1_rc; m=3/4; ncol2=14; w=-3; offset=-3; strand=R; shift=1; score=0.604742; -wwaAATCAATCAaw- ; cor=; Ncor= a 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 c 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 g 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 t 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m2; m=4/4; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=0.584219; wwhaAATCAATCAAww ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=19; shift=3; ncol=22; ---haAACAAACAAAaAAAwww ; Alignment reference a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 1410 1514 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 274 239 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 203 219 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720 777 692
oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/5; ncol2=19; w=0; offset=0; strand=D; shift=3; score= 1; ---haAACAAACAAAaAAAwww ; cor=; Ncor= a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 1410 1514 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 274 239 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 203 219 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720 777 692
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m2; m=2/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.868442; ---wwmACAAACAAAAAAww-- ; cor=; Ncor= a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 0 0 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 0 0 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 0 0 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855 0 0
oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5; m=3/5; ncol2=20; w=0; offset=0; strand=D; shift=3; score=0.820974; ---haArCAArCAAACAAACAa ; cor=; Ncor= a 0 0 0 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 1326 c 0 0 0 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 182 g 0 0 0 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 106 t 0 0 0 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189 372
oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5; m=4/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.774555; ---wwAgCAAgCAAAAAAww-- ; cor=; Ncor= a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 0 0 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 0 0 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 0 0 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834 0 0
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2; m=5/5; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.470929; wwhaAATCAATCAAwww----- ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 0 0 0 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 0 0 0 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 0 0 0 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m4_shift1 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=13; shift=1; ncol=14; -hwTTCATTCATww ; Alignment reference a 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 c 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 g 0 289 202 43 48 90 37 23 24 89 38 33 234 279 t 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355
oligos_7nt_test_vs_ctrl_m4_shift1 (oligos_7nt_test_vs_ctrl_m4)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/4; ncol2=13; w=0; offset=0; strand=D; shift=1; score= 1; -hwTTCATTCATww ; cor=; Ncor= a 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 c 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 g 0 289 202 43 48 90 37 23 24 89 38 33 234 279 t 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355
oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3; m=2/4; ncol2=12; w=0; offset=1; strand=D; shift=2; score=0.773608; --wwTCATTCAAww ; cor=; Ncor= a 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 c 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 g 0 0 344 423 103 15 40 123 88 14 35 57 354 297 t 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528
oligos_6nt_test_vs_ctrl_m1_shift2 (oligos_6nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m1; m=3/4; ncol2=14; w=0; offset=1; strand=D; shift=2; score=0.582794; --wtTGATTGATTt ; cor=; Ncor= a 0 0 1951 977 250 283 3600 144 139 310 3689 216 319 924 c 0 0 285 378 84 57 77 82 65 57 69 64 90 207 g 0 0 441 376 66 3353 72 68 44 3319 48 90 109 808 t 0 0 1314 2260 3591 298 242 3697 3743 305 185 3621 3473 2052
oligos_7nt_test_vs_ctrl_m2_rc_shift0 (oligos_7nt_test_vs_ctrl_m2_rc)				; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m2_rc; m=4/4; ncol2=17; w=-1; offset=-1; strand=R; shift=0; score=0.563686; wwwTTGATTGATTt ; cor=; Ncor= a 913 920 809 153 161 209 2268 133 114 207 2359 177 242 402 c 212 219 91 56 43 41 68 41 39 47 59 35 67 96 g 256 604 130 58 45 2241 71 44 47 2226 70 61 60 423 t 1329 967 1680 2443 2461 219 303 2492 2510 230 222 2437 2341 1789

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=17; shift=3; ncol=20; ---wwAgCAAgCAAAAAAww ; Alignment reference a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834
oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/6; ncol2=17; w=0; offset=0; strand=D; shift=3; score= 1; ---wwAgCAAgCAAAAAAww ; cor=; Ncor= a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2; m=2/6; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.868653; ---wwmACAAACAAAAAAww ; cor=; Ncor= a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855
oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=3/6; ncol2=19; w=0; offset=0; strand=D; shift=3; score=0.774555; ---haAACAAACAAAaAAAw ; cor=; Ncor= a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720
oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=4/6; ncol2=20; w=0; offset=0; strand=D; shift=3; score=0.727567; ---haArCAArCAAACAAAC ; cor=; Ncor= a 0 0 0 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 c 0 0 0 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 g 0 0 0 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 t 0 0 0 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=5/6; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.537278; wwhaAATCAATCAAwww--- ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 0 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 0 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 0 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0 0
oligos_6nt_test_vs_ctrl_m1_rc_shift1 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1_rc; m=6/6; ncol2=14; w=-2; offset=-2; strand=R; shift=1; score=0.450787; -wwaAATCAATCAaw----- ; cor=; Ncor= a 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 0 0 0 0 c 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 0 0 0 0 g 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 0 0 0 0 t 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m2_shift1 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=1; ncol=18; -wwhaAATCAATCAAwww ; Alignment reference a 0 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 c 0 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 g 0 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 t 0 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913
oligos_7nt_test_vs_ctrl_m2_shift1 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/8; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -wwhaAATCAATCAAwww ; cor=; Ncor= a 0 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 c 0 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 g 0 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 t 0 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913
oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/8; ncol2=14; w=0; offset=1; strand=R; shift=2; score=0.796061; --wwaAATCAATCAaw-- ; cor=; Ncor= a 0 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 0 c 0 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 0 g 0 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 0 t 0 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0 0
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5; m=3/8; ncol2=20; w=-1; offset=-1; strand=D; shift=0; score=0.640141; haArCAArCAAACAAACA ; cor=; Ncor= a 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 c 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 g 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 t 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189
oligos_6nt_test_vs_ctrl_m3_shift5 (oligos_6nt_test_vs_ctrl_m3)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m3; m=4/8; ncol2=12; w=0; offset=4; strand=D; shift=5; score=0.584219; -----wwTCATTCAAww- ; cor=; Ncor= a 0 0 0 0 0 2134 1673 212 157 3903 886 156 117 4073 3470 1432 1537 0 c 0 0 0 0 0 406 448 92 4039 108 122 73 4086 66 125 398 991 0 g 0 0 0 0 0 344 423 103 15 40 123 88 14 35 57 354 297 0 t 0 0 0 0 0 1469 1809 3946 142 302 3222 4036 136 179 701 2169 1528 0
oligos_7nt_test_vs_ctrl_m4_rc_shift4 (oligos_7nt_test_vs_ctrl_m4_rc)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m4_rc; m=5/8; ncol2=13; w=0; offset=3; strand=R; shift=4; score=0.563686; ----wwATGAATGAAwd- ; cor=; Ncor= a 0 0 0 0 1355 1900 3159 137 398 3197 3306 150 376 3160 3221 1133 1183 0 c 0 0 0 0 279 234 33 38 89 24 23 37 90 48 43 202 289 0 g 0 0 0 0 833 356 68 37 2733 32 46 54 2723 52 73 349 891 0 t 0 0 0 0 993 970 200 3248 240 207 85 3219 271 200 123 1776 1097 0
oligos_6nt_test_vs_ctrl_m5_shift4 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=6/8; ncol2=17; w=0; offset=3; strand=D; shift=4; score=0.537278; ----wwAgCAAgCAAAAA ; cor=; Ncor= a 0 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 c 0 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 g 0 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 t 0 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222
oligos_6nt_test_vs_ctrl_m2_shift4 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=7/8; ncol2=17; w=0; offset=3; strand=D; shift=4; score=0.503033; ----wwmACAAACAAAAA ; cor=; Ncor= a 0 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 c 0 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 g 0 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 t 0 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231
oligos_7nt_test_vs_ctrl_m1_shift4 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=8/8; ncol2=19; w=0; offset=3; strand=D; shift=4; score=0.470929; ----haAACAAACAAAaA ; cor=; Ncor= a 0 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 c 0 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 g 0 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 t 0 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=17; shift=3; ncol=20; ---wwmACAAACAAAAAAww ; Alignment reference a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855
oligos_6nt_test_vs_ctrl_m2_shift3 (oligos_6nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score= 1; ---wwmACAAACAAAAAAww ; cor=; Ncor= a 0 0 0 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 c 0 0 0 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 g 0 0 0 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 t 0 0 0 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855
oligos_6nt_test_vs_ctrl_m5_shift3 (oligos_6nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=2/5; ncol2=17; w=0; offset=0; strand=D; shift=3; score=0.868653; ---wwAgCAAgCAAAAAAww ; cor=; Ncor= a 0 0 0 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 c 0 0 0 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 g 0 0 0 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 t 0 0 0 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834
oligos_7nt_test_vs_ctrl_m1_shift3 (oligos_7nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m1; m=3/5; ncol2=19; w=0; offset=0; strand=D; shift=3; score=0.868442; ---haAACAAACAAAaAAAw ; cor=; Ncor= a 0 0 0 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 c 0 0 0 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 g 0 0 0 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 t 0 0 0 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720
oligos_7nt_test_vs_ctrl_m5_shift3 (oligos_7nt_test_vs_ctrl_m5)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m5; m=4/5; ncol2=20; w=0; offset=0; strand=D; shift=3; score=0.701423; ---haArCAArCAAACAAAC ; cor=; Ncor= a 0 0 0 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 c 0 0 0 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 g 0 0 0 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 t 0 0 0 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260
oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2)				; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=5/5; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.503033; wwhaAATCAATCAAwww--- ; cor=; Ncor= a 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 0 c 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 0 g 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 0 t 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=20; shift=0; ncol=20; haArCAArCAAACAAACAaa ; Alignment reference a 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 1326 1127 c 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 182 148 g 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 106 220 t 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189 372 491
oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/6; ncol2=20; w=0; offset=0; strand=D; shift=0; score= 1; haArCAArCAAACAAACAaa ; cor=; Ncor= a 580 1235 1660 779 252 1723 1769 893 110 1815 1825 1481 115 1803 1791 1521 245 1730 1326 1127 c 700 129 66 91 1412 33 45 71 1674 18 41 34 1667 41 58 41 1407 45 182 148 g 144 134 61 733 59 41 51 702 37 21 31 231 43 12 35 183 74 22 106 220 t 562 488 199 383 263 189 121 320 165 132 89 240 161 130 102 241 260 189 372 491
oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=2/6; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.820974; haAACAAACAAAaAAAwww- ; cor=; Ncor= a 943 1653 2355 2299 314 2444 2478 2420 243 2450 2467 2400 1581 2280 2282 2004 870 1410 1514 0 c 733 210 66 57 1982 29 59 45 2087 41 54 60 566 89 97 141 491 274 239 0 g 205 155 50 107 91 25 21 64 82 32 36 60 116 53 79 145 583 203 219 0 t 783 646 193 201 277 166 106 135 252 141 107 144 401 242 206 374 720 777 692 0
oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=3/6; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.727567; wwAgCAAgCAAAAAAww--- ; cor=; Ncor= a 932 1359 2135 553 333 2224 2355 638 147 2389 2443 2255 1965 2335 2055 1228 1093 0 0 0 c 607 239 91 93 1964 78 62 105 2339 38 55 60 347 60 122 279 477 0 0 0 g 249 243 96 1635 78 50 52 1558 30 37 48 153 61 49 133 342 262 0 0 0 t 878 825 344 385 291 314 197 365 150 202 120 198 293 222 356 817 834 0 0 0
oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m2; m=4/6; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.701423; wwmACAAACAAAAAAww--- ; cor=; Ncor= a 1027 1493 1270 2157 248 2423 2412 2363 158 2446 2453 2401 1867 2331 2047 1407 1089 0 0 0 c 646 228 744 82 2234 48 97 49 2306 47 65 74 433 68 175 268 484 0 0 0 g 203 183 137 145 41 22 37 72 38 32 38 55 69 55 123 243 257 0 0 0 t 809 781 534 301 162 192 139 201 183 160 129 155 316 231 340 767 855 0 0 0
oligos_7nt_test_vs_ctrl_m2_shift1 (oligos_7nt_test_vs_ctrl_m2)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=5/6; ncol2=17; w=0; offset=1; strand=D; shift=1; score=0.640141; -wwhaAATCAATCAAwww-- ; cor=; Ncor= a 0 1304 1364 713 1789 2341 2437 222 230 2510 2492 303 219 2461 2443 1680 967 1329 0 0 c 0 285 259 841 423 60 61 70 2226 47 44 71 2241 45 58 130 604 256 0 0 g 0 259 247 193 96 67 35 59 47 39 41 68 41 43 56 91 219 212 0 0 t 0 862 840 963 402 242 177 2359 207 114 133 2268 209 161 153 809 920 913 0 0
oligos_6nt_test_vs_ctrl_m1_rc_shift2 (oligos_6nt_test_vs_ctrl_m1_rc)				; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m1_rc; m=6/6; ncol2=14; w=0; offset=2; strand=R; shift=2; score=0.509071; --wwaAATCAATCAaw---- ; cor=; Ncor= a 0 0 2100 1346 2052 3473 3621 185 305 3743 3697 242 298 3591 2260 1314 0 0 0 0 c 0 0 376 427 808 109 90 48 3319 44 68 72 3353 66 376 441 0 0 0 0 g 0 0 403 385 207 90 64 69 57 65 82 77 57 84 378 285 0 0 0 0 t 0 0 1112 1833 924 319 216 3689 310 139 144 3600 283 250 977 1951 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_test_vs_ctrl_m1_shift5 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=14; shift=5; ncol=19; -----wtTGATTGATTtww ; Alignment reference a 0 0 0 0 0 1951 977 250 283 3600 144 139 310 3689 216 319 924 1833 1112 c 0 0 0 0 0 285 378 84 57 77 82 65 57 69 64 90 207 385 403 g 0 0 0 0 0 441 376 66 3353 72 68 44 3319 48 90 109 808 427 376 t 0 0 0 0 0 1314 2260 3591 298 242 3697 3743 305 185 3621 3473 2052 1346 2100
oligos_6nt_test_vs_ctrl_m1_shift5 (oligos_6nt_test_vs_ctrl_m1)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/6; ncol2=14; w=0; offset=0; strand=D; shift=5; score= 1; -----wtTGATTGATTtww ; cor=; Ncor= a 0 0 0 0 0 1951 977 250 283 3600 144 139 310 3689 216 319 924 1833 1112 c 0 0 0 0 0 285 378 84 57 77 82 65 57 69 64 90 207 385 403 g 0 0 0 0 0 441 376 66 3353 72 68 44 3319 48 90 109 808 427 376 t 0 0 0 0 0 1314 2260 3591 298 242 3697 3743 305 185 3621 3473 2052 1346 2100
oligos_7nt_test_vs_ctrl_m2_rc_shift3 (oligos_7nt_test_vs_ctrl_m2_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m2_rc; m=2/6; ncol2=17; w=-2; offset=-2; strand=R; shift=3; score=0.796061; ---wwwTTGATTGATTtdw ; cor=; Ncor= a 0 0 0 913 920 809 153 161 209 2268 133 114 207 2359 177 242 402 963 840 c 0 0 0 212 219 91 56 43 41 68 41 39 47 59 35 67 96 193 247 g 0 0 0 256 604 130 58 45 2241 71 44 47 2226 70 61 60 423 841 259 t 0 0 0 1329 967 1680 2443 2461 219 303 2492 2510 230 222 2437 2341 1789 713 1364
oligos_6nt_test_vs_ctrl_m3_rc_shift4 (oligos_6nt_test_vs_ctrl_m3_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m3_rc; m=3/6; ncol2=12; w=-1; offset=-1; strand=R; shift=4; score=0.604742; ----wwTTGAATGAww--- ; cor=; Ncor= a 0 0 0 0 1528 2169 701 179 136 4036 3222 302 142 3946 1809 1469 0 0 0 c 0 0 0 0 297 354 57 35 14 88 123 40 15 103 423 344 0 0 0 g 0 0 0 0 991 398 125 66 4086 73 122 108 4039 92 448 406 0 0 0 t 0 0 0 0 1537 1432 3470 4073 117 156 886 3903 157 212 1673 2134 0 0 0
oligos_7nt_test_vs_ctrl_m4_shift4 (oligos_7nt_test_vs_ctrl_m4)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m4; m=4/6; ncol2=13; w=-1; offset=-1; strand=D; shift=4; score=0.582794; ----hwTTCATTCATww-- ; cor=; Ncor= a 0 0 0 0 1097 1776 123 200 271 3219 85 207 240 3248 200 970 993 0 0 c 0 0 0 0 891 349 73 52 2723 54 46 32 2733 37 68 356 833 0 0 g 0 0 0 0 289 202 43 48 90 37 23 24 89 38 33 234 279 0 0 t 0 0 0 0 1183 1133 3221 3160 376 150 3306 3197 398 137 3159 1900 1355 0 0
oligos_7nt_test_vs_ctrl_m5_rc_shift1 (oligos_7nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5_rc; m=5/6; ncol2=20; w=-4; offset=-4; strand=R; shift=1; score=0.509071; -ttTGTTTGTTTGyTTGyT ; cor=; Ncor= a 0 491 372 189 260 241 102 130 161 240 89 132 165 320 121 189 263 383 199 c 0 220 106 22 74 183 35 12 43 231 31 21 37 702 51 41 59 733 61 g 0 148 182 45 1407 41 58 41 1667 34 41 18 1674 71 45 33 1412 91 66 t 0 1127 1326 1730 245 1521 1791 1803 115 1481 1825 1815 110 893 1769 1723 252 779 1660
oligos_6nt_test_vs_ctrl_m5_rc_shift0 (oligos_6nt_test_vs_ctrl_m5_rc)				; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m5_rc; m=6/6; ncol2=17; w=-5; offset=-5; strand=R; shift=0; score=0.450787; wwTTTTTTGcTTGcTww-- ; cor=; Ncor= a 834 817 356 222 293 198 120 202 150 365 197 314 291 385 344 825 878 0 0 c 262 342 133 49 61 153 48 37 30 1558 52 50 78 1635 96 243 249 0 0 g 477 279 122 60 347 60 55 38 2339 105 62 78 1964 93 91 239 607 0 0 t 1093 1228 2055 2335 1965 2255 2443 2389 147 638 2355 2224 333 553 2135 1359 932 0 0