One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.155730_2025-09-18.155730_PhUuvq/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.155730_2025-09-18.155730_PhUuvq/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; aaAAACAAAACcaw ; Alignment reference a 296 312 597 657 683 38 698 677 680 658 114 186 298 312 c 141 128 54 32 28 635 27 24 22 32 537 381 151 128 g 159 140 48 30 18 25 7 24 25 23 39 37 129 120 t 157 173 54 34 24 55 21 28 26 40 63 149 175 193

oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; aaAAACAAAACcaw ; cor=; Ncor= a 296 312 597 657 683 38 698 677 680 658 114 186 298 312 c 141 128 54 32 28 635 27 24 22 32 537 381 151 128 g 159 140 48 30 18 25 7 24 25 23 39 37 129 120 t 157 173 54 34 24 55 21 28 26 40 63 149 175 193

oligos_7nt_mkv4_m4_shift1 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m4; m=2/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.579545; -wwAACCAAAww-- ; cor=; Ncor= a 0 276 259 677 720 24 32 705 679 716 202 247 0 0 c 0 138 134 10 21 737 685 12 22 22 167 175 0 0 g 0 172 113 25 13 5 27 30 28 18 167 138 0 0 t 0 202 282 76 34 22 44 41 59 32 252 228 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m5_shift0 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; cwCCACCTCyw ; Alignment reference a 409 464 60 41 1443 33 107 190 44 425 456 c 588 311 1648 1683 36 1610 1610 77 1571 642 432 g 385 421 39 42 89 76 33 61 93 284 415 t 435 621 70 51 249 98 67 1489 109 466 514

oligos_7nt_mkv4_m5_shift0 (oligos_7nt_mkv4_m5)
; oligos_7nt_mkv4_m5 versus oligos_7nt_mkv4_m5; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; cwCCACCTCyw ; cor=; Ncor= a 409 464 60 41 1443 33 107 190 44 425 456 c 588 311 1648 1683 36 1610 1610 77 1571 642 432 g 385 421 39 42 89 76 33 61 93 284 415 t 435 621 70 51 249 98 67 1489 109 466 514

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; waTACATAyww ; Alignment reference a 243 399 22 836 29 783 18 827 101 380 259 c 140 123 33 9 628 23 29 15 480 105 184 g 132 183 20 11 21 32 25 11 68 127 161 t 353 163 793 12 190 30 796 15 219 256 264

oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4 versus oligos_6nt_mkv3_m4; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; waTACATAyww ; cor=; Ncor= a 243 399 22 836 29 783 18 827 101 380 259 c 140 123 33 9 628 23 29 15 480 105 184 g 132 183 20 11 21 32 25 11 68 127 161 t 353 163 793 12 190 30 796 15 219 256 264

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; sgCGAGCGagr ; Alignment reference a 161 151 42 32 544 27 36 18 438 113 171 c 177 154 554 44 42 33 590 52 133 156 151 g 202 205 31 582 52 579 16 587 61 272 178 t 124 154 37 6 26 25 22 7 32 123 164

oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)
; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; sgCGAGCGagr ; cor=; Ncor= a 161 151 42 32 544 27 36 18 438 113 171 c 177 154 554 44 42 33 590 52 133 156 151 g 202 205 31 582 52 579 16 587 61 272 178 t 124 154 37 6 26 25 22 7 32 123 164

oligos_7nt_mkv4_m3_shift0 (oligos_7nt_mkv4_m3)
; oligos_6nt_mkv3_m3 versus oligos_7nt_mkv4_m3; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.86257; ssCGAGCGCmk ; cor=; Ncor= a 145 143 33 74 576 19 33 32 31 171 149 c 197 170 567 57 39 16 586 31 612 201 158 g 204 198 49 538 29 632 36 584 25 161 182 t 132 167 29 9 34 11 23 31 10 145 189

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; wrAAGAAAawa ; Alignment reference a 485 558 1367 1362 0 1369 1362 1369 471 515 503 c 195 249 1 11 0 0 1 3 253 248 266 g 342 385 5 4 1377 3 3 3 340 266 274 t 357 187 6 2 2 7 13 4 315 350 336

oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2)
; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wrAAGAAAawa ; cor=; Ncor= a 485 558 1367 1362 0 1369 1362 1369 471 515 503 c 195 249 1 11 0 0 1 3 253 248 266 g 342 385 5 4 1377 3 3 3 340 266 274 t 357 187 6 2 2 7 13 4 315 350 336

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m4_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m4_shift1 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -wwAACCAAAww ; Alignment reference a 0 276 259 677 720 24 32 705 679 716 202 247 c 0 138 134 10 21 737 685 12 22 22 167 175 g 0 172 113 25 13 5 27 30 28 18 167 138 t 0 202 282 76 34 22 44 41 59 32 252 228

oligos_7nt_mkv4_m4_shift1 (oligos_7nt_mkv4_m4)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m4; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -wwAACCAAAww ; cor=; Ncor= a 0 276 259 677 720 24 32 705 679 716 202 247 c 0 138 134 10 21 737 685 12 22 22 167 175 g 0 172 113 25 13 5 27 30 28 18 167 138 t 0 202 282 76 34 22 44 41 59 32 252 228

oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1)
; oligos_7nt_mkv4_m4 versus oligos_7nt_mkv4_m1; m=2/2; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.579545; aaAAACAAAACc ; cor=; Ncor= a 296 312 597 657 683 38 698 677 680 658 114 186 c 141 128 54 32 28 635 27 24 22 32 537 381 g 159 140 48 30 18 25 7 24 25 23 39 37 t 157 173 54 34 24 55 21 28 26 40 63 149

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m2_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m2_shift1 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -sgCGGCTGCtg ; Alignment reference a 0 311 288 76 99 31 27 66 26 25 302 223 c 0 333 283 1080 99 61 1207 83 49 1191 293 317 g 0 368 445 41 950 1159 33 142 1148 40 261 470 t 0 273 269 88 137 34 18 994 62 29 429 275

oligos_7nt_mkv4_m2_shift1 (oligos_7nt_mkv4_m2)
; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m2; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -sgCGGCTGCtg ; cor=; Ncor= a 0 311 288 76 99 31 27 66 26 25 302 223 c 0 333 283 1080 99 61 1207 83 49 1191 293 317 g 0 368 445 41 950 1159 33 142 1148 40 261 470 t 0 273 269 88 137 34 18 994 62 29 429 275

oligos_6nt_mkv3_m1_rc_shift0 (oligos_6nt_mkv3_m1_rc)
; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m1_rc; m=2/3; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.711423; ssGCGGCGGcss ; cor=; Ncor= a 222 254 78 77 70 67 60 56 64 144 253 255 c 574 355 116 1176 119 128 1195 151 144 883 371 373 g 363 542 1136 80 1112 1137 66 1106 1086 193 549 532 t 223 231 52 49 81 50 61 69 88 162 209 222

oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m5; m=3/3; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.569188; cssCGGCGGCGc ; cor=; Ncor= a 174 150 143 60 48 46 50 54 49 28 50 68 c 442 269 465 811 116 145 885 109 181 885 80 680 g 258 479 311 113 803 781 61 826 773 66 861 208 t 165 141 120 55 72 67 43 50 36 60 48 83

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m3_shift0 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGAGCGCmk ; Alignment reference a 145 143 33 74 576 19 33 32 31 171 149 c 197 170 567 57 39 16 586 31 612 201 158 g 204 198 49 538 29 632 36 584 25 161 182 t 132 167 29 9 34 11 23 31 10 145 189

oligos_7nt_mkv4_m3_shift0 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3 versus oligos_7nt_mkv4_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGAGCGCmk ; cor=; Ncor= a 145 143 33 74 576 19 33 32 31 171 149 c 197 170 567 57 39 16 586 31 612 201 158 g 204 198 49 538 29 632 36 584 25 161 182 t 132 167 29 9 34 11 23 31 10 145 189

oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3)
; oligos_7nt_mkv4_m3 versus oligos_6nt_mkv3_m3; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.86257; sgCGAGCGagr ; cor=; Ncor= a 161 151 42 32 544 27 36 18 438 113 171 c 177 154 554 44 42 33 590 52 133 156 151 g 202 205 31 582 52 579 16 587 61 272 178 t 124 154 37 6 26 25 22 7 32 123 164

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift2 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=12; shift=2; ncol=14; --ssgCCGCCGCss ; Alignment reference a 0 0 222 209 162 88 69 61 50 81 49 52 231 223 c 0 0 532 549 193 1086 1106 66 1137 1112 80 1136 542 363 g 0 0 373 371 883 144 151 1195 128 119 1176 116 355 574 t 0 0 255 253 144 64 56 60 67 70 77 78 254 222

oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)
; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/3; ncol2=12; w=0; offset=0; strand=D; shift=2; score= 1; --ssgCCGCCGCss ; cor=; Ncor= a 0 0 222 209 162 88 69 61 50 81 49 52 231 223 c 0 0 532 549 193 1086 1106 66 1137 1112 80 1136 542 363 g 0 0 373 371 883 144 151 1195 128 119 1176 116 355 574 t 0 0 255 253 144 64 56 60 67 70 77 78 254 222

oligos_6nt_mkv3_m5_rc_shift0 (oligos_6nt_mkv3_m5_rc)
; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m5_rc; m=2/3; ncol2=14; w=-2; offset=-2; strand=R; shift=0; score=0.740167; csgCGCCGCCGssg ; cor=; Ncor= a 157 205 83 48 60 36 50 43 67 72 55 120 141 165 c 490 260 208 861 66 773 826 61 781 803 113 311 479 258 g 249 462 680 80 885 181 109 885 145 116 811 465 269 442 t 143 112 68 50 28 49 54 50 46 48 60 143 150 174

oligos_7nt_mkv4_m2_rc_shift2 (oligos_7nt_mkv4_m2_rc)
; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m2_rc; m=3/3; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.711423; --caGCAGCCGcs- ; cor=; Ncor= a 0 0 275 429 29 62 994 18 34 137 88 269 273 0 c 0 0 470 261 40 1148 142 33 1159 950 41 445 368 0 g 0 0 317 293 1191 49 83 1207 61 99 1080 283 333 0 t 0 0 223 302 25 26 66 27 31 99 76 288 311 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m5_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=14; shift=0; ncol=14; cssCGGCGGCGcsg ; Alignment reference a 174 150 143 60 48 46 50 54 49 28 50 68 112 143 c 442 269 465 811 116 145 885 109 181 885 80 680 462 249 g 258 479 311 113 803 781 61 826 773 66 861 208 260 490 t 165 141 120 55 72 67 43 50 36 60 48 83 205 157

oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5 versus oligos_6nt_mkv3_m5; m=1/3; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; cssCGGCGGCGcsg ; cor=; Ncor= a 174 150 143 60 48 46 50 54 49 28 50 68 112 143 c 442 269 465 811 116 145 885 109 181 885 80 680 462 249 g 258 479 311 113 803 781 61 826 773 66 861 208 260 490 t 165 141 120 55 72 67 43 50 36 60 48 83 205 157

oligos_6nt_mkv3_m1_rc_shift0 (oligos_6nt_mkv3_m1_rc)
; oligos_6nt_mkv3_m5 versus oligos_6nt_mkv3_m1_rc; m=2/3; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.740167; ssGCGGCGGcss-- ; cor=; Ncor= a 222 254 78 77 70 67 60 56 64 144 253 255 0 0 c 574 355 116 1176 119 128 1195 151 144 883 371 373 0 0 g 363 542 1136 80 1112 1137 66 1106 1086 193 549 532 0 0 t 223 231 52 49 81 50 61 69 88 162 209 222 0 0

oligos_7nt_mkv4_m2_shift1 (oligos_7nt_mkv4_m2)
; oligos_6nt_mkv3_m5 versus oligos_7nt_mkv4_m2; m=3/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.569188; -sgCGGCTGCtg-- ; cor=; Ncor= a 0 311 288 76 99 31 27 66 26 25 302 223 0 0 c 0 333 283 1080 99 61 1207 83 49 1191 293 317 0 0 g 0 368 445 41 950 1159 33 142 1148 40 261 470 0 0 t 0 273 269 88 137 34 18 994 62 29 429 275 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m2_shift1 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -sgCGGCTGCtg ; Alignment reference a 0 311 288 76 99 31 27 66 26 25 302 223 c 0 333 283 1080 99 61 1207 83 49 1191 293 317 g 0 368 445 41 950 1159 33 142 1148 40 261 470 t 0 273 269 88 137 34 18 994 62 29 429 275
oligos_7nt_mkv4_m2_shift1 (oligos_7nt_mkv4_m2)				; oligos_7nt_mkv4_m2 versus oligos_7nt_mkv4_m2; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -sgCGGCTGCtg ; cor=; Ncor= a 0 311 288 76 99 31 27 66 26 25 302 223 c 0 333 283 1080 99 61 1207 83 49 1191 293 317 g 0 368 445 41 950 1159 33 142 1148 40 261 470 t 0 273 269 88 137 34 18 994 62 29 429 275
oligos_6nt_mkv3_m1_rc_shift0 (oligos_6nt_mkv3_m1_rc)				; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m1_rc; m=2/3; ncol2=12; w=-1; offset=-1; strand=R; shift=0; score=0.711423; ssGCGGCGGcss ; cor=; Ncor= a 222 254 78 77 70 67 60 56 64 144 253 255 c 574 355 116 1176 119 128 1195 151 144 883 371 373 g 363 542 1136 80 1112 1137 66 1106 1086 193 549 532 t 223 231 52 49 81 50 61 69 88 162 209 222
oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)				; oligos_7nt_mkv4_m2 versus oligos_6nt_mkv3_m5; m=3/3; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.569188; cssCGGCGGCGc ; cor=; Ncor= a 174 150 143 60 48 46 50 54 49 28 50 68 c 442 269 465 811 116 145 885 109 181 885 80 680 g 258 479 311 113 803 781 61 826 773 66 861 208 t 165 141 120 55 72 67 43 50 36 60 48 83

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=12; shift=2; ncol=14; --ssgCCGCCGCss ; Alignment reference a 0 0 222 209 162 88 69 61 50 81 49 52 231 223 c 0 0 532 549 193 1086 1106 66 1137 1112 80 1136 542 363 g 0 0 373 371 883 144 151 1195 128 119 1176 116 355 574 t 0 0 255 253 144 64 56 60 67 70 77 78 254 222
oligos_6nt_mkv3_m1_shift2 (oligos_6nt_mkv3_m1)				; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/3; ncol2=12; w=0; offset=0; strand=D; shift=2; score= 1; --ssgCCGCCGCss ; cor=; Ncor= a 0 0 222 209 162 88 69 61 50 81 49 52 231 223 c 0 0 532 549 193 1086 1106 66 1137 1112 80 1136 542 363 g 0 0 373 371 883 144 151 1195 128 119 1176 116 355 574 t 0 0 255 253 144 64 56 60 67 70 77 78 254 222
oligos_6nt_mkv3_m5_rc_shift0 (oligos_6nt_mkv3_m5_rc)				; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m5_rc; m=2/3; ncol2=14; w=-2; offset=-2; strand=R; shift=0; score=0.740167; csgCGCCGCCGssg ; cor=; Ncor= a 157 205 83 48 60 36 50 43 67 72 55 120 141 165 c 490 260 208 861 66 773 826 61 781 803 113 311 479 258 g 249 462 680 80 885 181 109 885 145 116 811 465 269 442 t 143 112 68 50 28 49 54 50 46 48 60 143 150 174
oligos_7nt_mkv4_m2_rc_shift2 (oligos_7nt_mkv4_m2_rc)				; oligos_6nt_mkv3_m1 versus oligos_7nt_mkv4_m2_rc; m=3/3; ncol2=11; w=0; offset=0; strand=R; shift=2; score=0.711423; --caGCAGCCGcs- ; cor=; Ncor= a 0 0 275 429 29 62 994 18 34 137 88 269 273 0 c 0 0 470 261 40 1148 142 33 1159 950 41 445 368 0 g 0 0 317 293 1191 49 83 1207 61 99 1080 283 333 0 t 0 0 223 302 25 26 66 27 31 99 76 288 311 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)				; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=14; shift=0; ncol=14; cssCGGCGGCGcsg ; Alignment reference a 174 150 143 60 48 46 50 54 49 28 50 68 112 143 c 442 269 465 811 116 145 885 109 181 885 80 680 462 249 g 258 479 311 113 803 781 61 826 773 66 861 208 260 490 t 165 141 120 55 72 67 43 50 36 60 48 83 205 157
oligos_6nt_mkv3_m5_shift0 (oligos_6nt_mkv3_m5)				; oligos_6nt_mkv3_m5 versus oligos_6nt_mkv3_m5; m=1/3; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; cssCGGCGGCGcsg ; cor=; Ncor= a 174 150 143 60 48 46 50 54 49 28 50 68 112 143 c 442 269 465 811 116 145 885 109 181 885 80 680 462 249 g 258 479 311 113 803 781 61 826 773 66 861 208 260 490 t 165 141 120 55 72 67 43 50 36 60 48 83 205 157
oligos_6nt_mkv3_m1_rc_shift0 (oligos_6nt_mkv3_m1_rc)				; oligos_6nt_mkv3_m5 versus oligos_6nt_mkv3_m1_rc; m=2/3; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.740167; ssGCGGCGGcss-- ; cor=; Ncor= a 222 254 78 77 70 67 60 56 64 144 253 255 0 0 c 574 355 116 1176 119 128 1195 151 144 883 371 373 0 0 g 363 542 1136 80 1112 1137 66 1106 1086 193 549 532 0 0 t 223 231 52 49 81 50 61 69 88 162 209 222 0 0
oligos_7nt_mkv4_m2_shift1 (oligos_7nt_mkv4_m2)				; oligos_6nt_mkv3_m5 versus oligos_7nt_mkv4_m2; m=3/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.569188; -sgCGGCTGCtg-- ; cor=; Ncor= a 0 311 288 76 99 31 27 66 26 25 302 223 0 0 c 0 333 283 1080 99 61 1207 83 49 1191 293 317 0 0 g 0 368 445 41 950 1159 33 142 1148 40 261 470 0 0 t 0 273 269 88 137 34 18 994 62 29 429 275 0 0