One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/09/18/peak-motifs.2025-09-18.095222_2025-09-18.095222_GHH2VN/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.2025-09-18.095222_2025-09-18.095222_GHH2VN/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
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; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; rdGGATGACmw
; Alignment reference
a 212 180 68 10 620 23 21 607 17 202 174
c 134 113 23 5 18 36 16 11 606 194 155
g 195 190 508 647 27 36 616 29 15 142 136
t 143 201 85 22 19 589 31 37 46 146 219
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| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
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; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rdGGATGACmw
; cor=; Ncor=
a 212 180 68 10 620 23 21 607 17 202 174
c 134 113 23 5 18 36 16 11 606 194 155
g 195 190 508 647 27 36 616 29 15 142 136
t 143 201 85 22 19 589 31 37 46 146 219
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| oligos_7nt_test_vs_ctrl_m1_rc_shift1 (oligos_7nt_test_vs_ctrl_m1_rc) |
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; oligos_6nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1_rc; m=2/2; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.740056; -wtGATGACTd
; cor=; Ncor=
a 0 157 128 28 464 23 27 457 11 45 141
c 0 72 75 15 18 22 10 16 475 29 89
g 0 118 126 450 20 13 459 20 19 29 139
t 0 171 189 25 16 460 22 25 13 415 149
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
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; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; rhAGTCATCaw
; Alignment reference
a 152 149 415 13 25 22 460 16 25 189 171
c 112 139 29 19 20 459 13 20 450 126 118
g 130 89 29 475 16 10 22 18 15 75 72
t 124 141 45 11 457 27 23 464 28 128 157
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| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
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; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rhAGTCATCaw
; cor=; Ncor=
a 152 149 415 13 25 22 460 16 25 189 171
c 112 139 29 19 20 459 13 20 450 126 118
g 130 89 29 475 16 10 22 18 15 75 72
t 124 141 45 11 457 27 23 464 28 128 157
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| oligos_6nt_test_vs_ctrl_m1_rc_shift1 (oligos_6nt_test_vs_ctrl_m1_rc) |
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; oligos_7nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1_rc; m=2/2; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.740056; -wkGTCATCCh
; cor=; Ncor=
a 0 219 146 46 37 31 589 19 22 85 201
c 0 136 142 15 29 616 36 27 647 508 190
g 0 155 194 606 11 16 36 18 5 23 113
t 0 174 202 17 607 21 23 620 10 68 180
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One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2) |
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; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; yaTGGCAAgr
; Alignment reference
a 80 154 4 0 0 0 395 419 102 135
c 108 84 5 4 0 424 0 1 92 81
g 105 84 7 425 429 1 27 1 152 140
t 136 107 413 0 0 4 7 8 83 73
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| oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2) |
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; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; yaTGGCAAgr
; cor=; Ncor=
a 80 154 4 0 0 0 395 419 102 135
c 108 84 5 4 0 424 0 1 92 81
g 105 84 7 425 429 1 27 1 152 140
t 136 107 413 0 0 4 7 8 83 73
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2) |
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; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; wyATTGATCww
; Alignment reference
a 105 97 363 13 19 28 354 17 30 125 106
c 70 117 5 13 8 10 12 17 303 72 86
g 91 41 11 10 22 324 8 11 34 68 69
t 123 134 10 353 340 27 15 344 22 124 128
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| oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2) |
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; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wyATTGATCww
; cor=; Ncor=
a 105 97 363 13 19 28 354 17 30 125 106
c 70 117 5 13 8 10 12 17 303 72 86
g 91 41 11 10 22 324 8 11 34 68 69
t 123 134 10 353 340 27 15 344 22 124 128
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One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| dyads_test_vs_ctrl_m1_shift0 (dyads_test_vs_ctrl_m1) |
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; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=26; shift=0; ncol=26; rwCAAyryrwtcwtywwcrTsTACaw
; Alignment reference
a 82 75 14 237 217 25 76 65 82 116 37 37 85 60 38 80 87 27 144 22 50 39 237 10 104 93
c 52 42 221 9 17 86 28 81 44 22 66 121 32 36 74 43 54 162 26 26 84 6 6 238 42 49
g 87 66 20 8 14 61 104 33 104 30 43 54 38 37 52 56 40 32 82 11 73 14 6 2 60 58
t 46 84 12 13 19 95 59 88 37 99 121 55 112 134 103 88 86 46 15 208 60 208 18 17 61 67
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| dyads_test_vs_ctrl_m1_shift0 (dyads_test_vs_ctrl_m1) |
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; dyads_test_vs_ctrl_m1 versus dyads_test_vs_ctrl_m1; m=1/1; ncol2=26; w=0; offset=0; strand=D; shift=0; score= 1; rwCAAyryrwtcwtywwcrTsTACaw
; cor=; Ncor=
a 82 75 14 237 217 25 76 65 82 116 37 37 85 60 38 80 87 27 144 22 50 39 237 10 104 93
c 52 42 221 9 17 86 28 81 44 22 66 121 32 36 74 43 54 162 26 26 84 6 6 238 42 49
g 87 66 20 8 14 61 104 33 104 30 43 54 38 37 52 56 40 32 82 11 73 14 6 2 60 58
t 46 84 12 13 19 95 59 88 37 99 121 55 112 134 103 88 86 46 15 208 60 208 18 17 61 67
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One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| dyads_test_vs_ctrl_m4_shift0 (dyads_test_vs_ctrl_m4) |
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; dyads_test_vs_ctrl_m4; m=0 (reference); ncol1=29; shift=0; ncol=29; ywtCAwswrwysdwtymcrtwCwaCAamd
; Alignment reference
a 56 100 41 9 230 116 45 95 127 94 54 50 86 89 60 60 91 57 118 53 91 30 72 166 14 191 170 73 82
c 83 41 23 244 23 52 98 68 33 53 93 94 36 42 52 81 83 144 31 16 59 205 10 15 226 22 24 87 48
g 55 50 35 11 6 27 96 21 77 28 37 78 71 33 39 65 56 24 106 30 48 18 21 67 21 26 44 58 76
t 81 84 176 11 16 80 36 91 38 100 91 53 82 111 124 69 45 50 20 176 77 22 172 27 14 36 37 57 69
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| dyads_test_vs_ctrl_m4_shift0 (dyads_test_vs_ctrl_m4) |
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; dyads_test_vs_ctrl_m4 versus dyads_test_vs_ctrl_m4; m=1/1; ncol2=29; w=0; offset=0; strand=D; shift=0; score= 1; ywtCAwswrwysdwtymcrtwCwaCAamd
; cor=; Ncor=
a 56 100 41 9 230 116 45 95 127 94 54 50 86 89 60 60 91 57 118 53 91 30 72 166 14 191 170 73 82
c 83 41 23 244 23 52 98 68 33 53 93 94 36 42 52 81 83 144 31 16 59 205 10 15 226 22 24 87 48
g 55 50 35 11 6 27 96 21 77 28 37 78 71 33 39 65 56 24 106 30 48 18 21 67 21 26 44 58 76
t 81 84 176 11 16 80 36 91 38 100 91 53 82 111 124 69 45 50 20 176 77 22 172 27 14 36 37 57 69
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One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| dyads_test_vs_ctrl_m3_shift0 (dyads_test_vs_ctrl_m3) |
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; dyads_test_vs_ctrl_m3; m=0 (reference); ncol1=24; shift=0; ncol=24; acATCtwyrwmkdkawmhrCAGmw
; Alignment reference
a 102 54 251 17 26 71 109 65 121 123 87 38 105 12 189 87 83 83 87 7 256 27 86 104
c 61 117 15 14 254 60 9 127 13 44 110 35 11 50 40 66 89 80 65 251 16 12 91 45
g 63 56 19 4 5 67 54 22 99 10 27 103 90 111 39 56 70 57 75 12 18 234 55 69
t 70 69 11 261 11 98 124 82 63 119 72 120 90 123 28 87 54 76 69 26 6 23 64 78
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| dyads_test_vs_ctrl_m3_shift0 (dyads_test_vs_ctrl_m3) |
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; dyads_test_vs_ctrl_m3 versus dyads_test_vs_ctrl_m3; m=1/1; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; acATCtwyrwmkdkawmhrCAGmw
; cor=; Ncor=
a 102 54 251 17 26 71 109 65 121 123 87 38 105 12 189 87 83 83 87 7 256 27 86 104
c 61 117 15 14 254 60 9 127 13 44 110 35 11 50 40 66 89 80 65 251 16 12 91 45
g 63 56 19 4 5 67 54 22 99 10 27 103 90 111 39 56 70 57 75 12 18 234 55 69
t 70 69 11 261 11 98 124 82 63 119 72 120 90 123 28 87 54 76 69 26 6 23 64 78
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One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| dyads_test_vs_ctrl_m2_shift0 (dyads_test_vs_ctrl_m2) |
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; dyads_test_vs_ctrl_m2; m=0 (reference); ncol1=27; shift=0; ncol=27; hmGATrhsatcwkkaycgyAksAGAwv
; Alignment reference
a 19 23 2 47 7 21 22 7 33 6 4 21 6 5 34 13 8 7 6 46 12 12 46 4 48 17 16
c 15 14 1 5 2 6 15 22 6 6 35 8 6 13 4 14 32 8 20 4 8 19 2 2 5 13 17
g 5 11 52 1 5 24 4 22 6 9 13 10 14 21 9 12 7 36 5 2 15 14 3 46 0 10 15
t 17 8 1 3 42 5 15 5 11 35 4 17 30 17 9 17 9 5 25 4 21 11 5 4 3 16 8
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| dyads_test_vs_ctrl_m2_shift0 (dyads_test_vs_ctrl_m2) |
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; dyads_test_vs_ctrl_m2 versus dyads_test_vs_ctrl_m2; m=1/1; ncol2=27; w=0; offset=0; strand=D; shift=0; score= 1; hmGATrhsatcwkkaycgyAksAGAwv
; cor=; Ncor=
a 19 23 2 47 7 21 22 7 33 6 4 21 6 5 34 13 8 7 6 46 12 12 46 4 48 17 16
c 15 14 1 5 2 6 15 22 6 6 35 8 6 13 4 14 32 8 20 4 8 19 2 2 5 13 17
g 5 11 52 1 5 24 4 22 6 9 13 10 14 21 9 12 7 36 5 2 15 14 3 46 0 10 15
t 17 8 1 3 42 5 15 5 11 35 4 17 30 17 9 17 9 5 25 4 21 11 5 4 3 16 8
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