One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/12/19/peak-motifs.2025-12-19.151950_2025-12-19.151950_Y26lkY/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/2025/12/19/peak-motifs.2025-12-19.151950_2025-12-19.151950_Y26lkY/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift2 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1) |
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; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=2; ncol=13; --dtATTTTTAww
; Alignment reference
a 0 0 1162 941 3914 117 490 418 425 160 3959 1083 1382
c 0 0 424 610 31 112 80 65 135 49 27 496 558
g 0 0 1080 383 49 122 161 106 171 22 18 872 444
t 0 0 1394 2126 66 3709 3329 3471 3329 3829 56 1609 1676
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| oligos_7nt_mkv5_m1_shift2 (oligos_7nt_mkv5_m1) |
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; oligos_7nt_mkv5_m1 versus oligos_7nt_mkv5_m1; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --dtATTTTTAww
; cor=; Ncor=
a 0 0 1162 941 3914 117 490 418 425 160 3959 1083 1382
c 0 0 424 610 31 112 80 65 135 49 27 496 558
g 0 0 1080 383 49 122 161 106 171 22 18 872 444
t 0 0 1394 2126 66 3709 3329 3471 3329 3829 56 1609 1676
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| oligos_6nt_mkv4_m5_rc_shift0 (oligos_6nt_mkv4_m5_rc) |
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; oligos_7nt_mkv5_m1 versus oligos_6nt_mkv4_m5_rc; m=2/2; ncol2=10; w=-2; offset=-2; strand=R; shift=0; score=0.470983; khTAATTTtt---
; cor=; Ncor=
a 470 569 0 2264 2258 3 73 14 482 528 0 0 0
c 361 743 0 6 5 3 11 11 332 320 0 0 0
g 721 338 2 2 1 6 5 4 306 270 0 0 0
t 723 625 2273 3 11 2263 2186 2246 1155 1157 0 0 0
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m2_shift0 (oligos_6nt_mkv4_m2) |
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; oligos_6nt_mkv4_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; svCGCCCGss
; Alignment reference
a 589 1168 150 325 60 158 173 351 579 845
c 1789 1183 3855 139 3963 3871 3421 294 1403 1673
g 1276 1387 187 3692 315 263 239 3620 1481 1258
t 756 672 218 254 72 118 577 145 947 634
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| oligos_6nt_mkv4_m2_shift0 (oligos_6nt_mkv4_m2) |
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; oligos_6nt_mkv4_m2 versus oligos_6nt_mkv4_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; svCGCCCGss
; cor=; Ncor=
a 589 1168 150 325 60 158 173 351 579 845
c 1789 1183 3855 139 3963 3871 3421 294 1403 1673
g 1276 1387 187 3692 315 263 239 3620 1481 1258
t 756 672 218 254 72 118 577 145 947 634
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m5_shift0 (oligos_7nt_mkv5_m5) |
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; oligos_7nt_mkv5_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; waCAAAAACwa
; Alignment reference
a 614 1072 33 1863 1756 1836 1696 1961 45 841 801
c 326 287 1871 31 95 64 105 20 1700 225 450
g 338 245 20 41 74 36 59 16 17 243 313
t 776 450 130 119 129 118 194 57 292 745 490
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| oligos_7nt_mkv5_m5_shift0 (oligos_7nt_mkv5_m5) |
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; oligos_7nt_mkv5_m5 versus oligos_7nt_mkv5_m5; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; waCAAAAACwa
; cor=; Ncor=
a 614 1072 33 1863 1756 1836 1696 1961 45 841 801
c 326 287 1871 31 95 64 105 20 1700 225 450
g 338 245 20 41 74 36 59 16 17 243 313
t 776 450 130 119 129 118 194 57 292 745 490
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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) |
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; oligos_6nt_mkv4_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; krGCCAGGCts
; Alignment reference
a 1063 1359 210 117 54 3358 54 126 197 1150 803
c 1073 892 364 4220 4302 436 198 108 4174 1002 1311
g 1280 1374 3750 172 176 438 4289 4298 78 940 1447
t 1213 1004 305 120 97 397 88 97 180 1537 1068
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| oligos_6nt_mkv4_m3_shift0 (oligos_6nt_mkv4_m3) |
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; oligos_6nt_mkv4_m3 versus oligos_6nt_mkv4_m3; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; krGCCAGGCts
; cor=; Ncor=
a 1063 1359 210 117 54 3358 54 126 197 1150 803
c 1073 892 364 4220 4302 436 198 108 4174 1002 1311
g 1280 1374 3750 172 176 438 4289 4298 78 940 1447
t 1213 1004 305 120 97 397 88 97 180 1537 1068
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m4_shift0 (oligos_7nt_mkv5_m4) |
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; oligos_7nt_mkv5_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; ctCTGTCTCwm
; Alignment reference
a 781 820 160 209 197 188 166 354 141 1184 1325
c 1769 1059 3876 305 216 174 3802 116 3861 1004 1222
g 798 633 182 100 3845 77 243 143 177 425 885
t 994 1830 124 3728 84 3903 131 3729 163 1729 910
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| oligos_7nt_mkv5_m4_shift0 (oligos_7nt_mkv5_m4) |
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; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m4; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ctCTGTCTCwm
; cor=; Ncor=
a 781 820 160 209 197 188 166 354 141 1184 1325
c 1769 1059 3876 305 216 174 3802 116 3861 1004 1222
g 798 633 182 100 3845 77 243 143 177 425 885
t 994 1830 124 3728 84 3903 131 3729 163 1729 910
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| oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3) |
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; oligos_7nt_mkv5_m4 versus oligos_7nt_mkv5_m3; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.825809; swCTGTGTCwc
; cor=; Ncor=
a 879 1113 195 187 96 184 166 208 167 1119 948
c 1213 842 3635 65 528 93 374 145 3424 833 1437
g 1075 846 197 68 3458 97 3500 134 314 454 773
t 1004 1370 144 3851 89 3797 131 3684 266 1765 1013
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m5_shift3 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m5_shift3 (oligos_6nt_mkv4_m5) |
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; oligos_6nt_mkv4_m5; m=0 (reference); ncol1=10; shift=3; ncol=13; ---aaAAATTAdm
; Alignment reference
a 0 0 0 1157 1155 2246 2186 2263 11 3 2273 625 723
c 0 0 0 270 306 4 5 6 1 2 2 338 721
g 0 0 0 320 332 11 11 3 5 6 0 743 361
t 0 0 0 528 482 14 73 3 2258 2264 0 569 470
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| oligos_6nt_mkv4_m5_shift3 (oligos_6nt_mkv4_m5) |
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; oligos_6nt_mkv4_m5 versus oligos_6nt_mkv4_m5; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=3; score= 1; ---aaAAATTAdm
; cor=; Ncor=
a 0 0 0 1157 1155 2246 2186 2263 11 3 2273 625 723
c 0 0 0 270 306 4 5 6 1 2 2 338 721
g 0 0 0 320 332 11 11 3 5 6 0 743 361
t 0 0 0 528 482 14 73 3 2258 2264 0 569 470
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| oligos_7nt_mkv5_m1_rc_shift0 (oligos_7nt_mkv5_m1_rc) |
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; oligos_6nt_mkv4_m5 versus oligos_7nt_mkv5_m1_rc; m=2/2; ncol2=11; w=-3; offset=-3; strand=R; shift=0; score=0.470983; wwTAAAAATah--
; cor=; Ncor=
a 1676 1609 56 3829 3329 3471 3329 3709 66 2126 1394 0 0
c 444 872 18 22 171 106 161 122 49 383 1080 0 0
g 558 496 27 49 135 65 80 112 31 610 424 0 0
t 1382 1083 3959 160 425 418 490 117 3914 941 1162 0 0
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1) |
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; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; ttCTTTTCyt
; Alignment reference
a 375 355 11 17 30 22 21 4 354 339
c 343 378 1630 5 11 5 3 1658 440 374
g 326 314 16 62 15 9 3 0 178 317
t 618 615 5 1578 1606 1626 1635 0 690 632
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| oligos_6nt_mkv4_m1_shift0 (oligos_6nt_mkv4_m1) |
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; oligos_6nt_mkv4_m1 versus oligos_6nt_mkv4_m1; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ttCTTTTCyt
; cor=; Ncor=
a 375 355 11 17 30 22 21 4 354 339
c 343 378 1630 5 11 5 3 1658 440 374
g 326 314 16 62 15 9 3 0 178 317
t 618 615 5 1578 1606 1626 1635 0 690 632
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2) |
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; oligos_7nt_mkv5_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; twCTTTTTCww
; Alignment reference
a 366 588 59 91 138 94 110 116 60 475 434
c 300 236 1529 17 51 50 51 31 1548 301 396
g 323 203 20 69 63 34 47 18 16 176 269
t 648 610 29 1460 1385 1459 1429 1472 13 685 538
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| oligos_7nt_mkv5_m2_shift0 (oligos_7nt_mkv5_m2) |
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; oligos_7nt_mkv5_m2 versus oligos_7nt_mkv5_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; twCTTTTTCww
; cor=; Ncor=
a 366 588 59 91 138 94 110 116 60 475 434
c 300 236 1529 17 51 50 51 31 1548 301 396
g 323 203 20 69 63 34 47 18 16 176 269
t 648 610 29 1460 1385 1459 1429 1472 13 685 538
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m4_shift0 (oligos_6nt_mkv4_m4) |
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; oligos_6nt_mkv4_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; gsCTGGGCrcs
; Alignment reference
a 700 471 18 51 35 49 45 10 1297 766 711
c 876 1234 3433 445 178 213 34 3487 651 1060 1080
g 1338 1268 83 280 3315 3203 3431 15 925 871 1222
t 627 568 7 2765 13 76 31 29 668 844 528
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| oligos_6nt_mkv4_m4_shift0 (oligos_6nt_mkv4_m4) |
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; oligos_6nt_mkv4_m4 versus oligos_6nt_mkv4_m4; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; gsCTGGGCrcs
; cor=; Ncor=
a 700 471 18 51 35 49 45 10 1297 766 711
c 876 1234 3433 445 178 213 34 3487 651 1060 1080
g 1338 1268 83 280 3315 3203 3431 15 925 871 1222
t 627 568 7 2765 13 76 31 29 668 844 528
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3) |
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; oligos_7nt_mkv5_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; swCTGTGTCwc
; Alignment reference
a 879 1113 195 187 96 184 166 208 167 1119 948
c 1213 842 3635 65 528 93 374 145 3424 833 1437
g 1075 846 197 68 3458 97 3500 134 314 454 773
t 1004 1370 144 3851 89 3797 131 3684 266 1765 1013
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| oligos_7nt_mkv5_m3_shift0 (oligos_7nt_mkv5_m3) |
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; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; swCTGTGTCwc
; cor=; Ncor=
a 879 1113 195 187 96 184 166 208 167 1119 948
c 1213 842 3635 65 528 93 374 145 3424 833 1437
g 1075 846 197 68 3458 97 3500 134 314 454 773
t 1004 1370 144 3851 89 3797 131 3684 266 1765 1013
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| oligos_7nt_mkv5_m4_shift0 (oligos_7nt_mkv5_m4) |
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; oligos_7nt_mkv5_m3 versus oligos_7nt_mkv5_m4; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.825809; ctCTGTCTCwm
; cor=; Ncor=
a 781 820 160 209 197 188 166 354 141 1184 1325
c 1769 1059 3876 305 216 174 3802 116 3861 1004 1222
g 798 633 182 100 3845 77 243 143 177 425 885
t 994 1830 124 3728 84 3903 131 3729 163 1729 910
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