One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/07/17/peak-motifs.2026-07-17.073707_2026-07-17.073707_AexKPQ/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/2026/07/17/peak-motifs.2026-07-17.073707_2026-07-17.073707_AexKPQ/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
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) |
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; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; amAACAACaa
; Alignment reference
a 64 36 135 135 0 134 135 0 59 46
c 27 49 0 0 131 0 0 135 31 31
g 23 29 0 0 0 0 0 0 16 30
t 21 21 0 0 4 1 0 0 29 28
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| oligos_6nt_mkv3_m4_shift0 (oligos_6nt_mkv3_m4) |
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; oligos_6nt_mkv3_m4 versus oligos_6nt_mkv3_m4; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; amAACAACaa
; cor=; Ncor=
a 64 36 135 135 0 134 135 0 59 46
c 27 49 0 0 131 0 0 135 31 31
g 23 29 0 0 0 0 0 0 16 30
t 21 21 0 0 4 1 0 0 29 28
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3) |
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; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=10; shift=0; ncol=10; rvAGAAAGrr
; Alignment reference
a 42 29 107 0 108 101 107 0 33 38
c 20 27 0 0 0 0 0 0 25 23
g 27 34 1 107 0 0 1 105 29 35
t 19 18 0 1 0 7 0 3 21 12
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| oligos_6nt_mkv3_m3_shift0 (oligos_6nt_mkv3_m3) |
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; oligos_6nt_mkv3_m3 versus oligos_6nt_mkv3_m3; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; rvAGAAAGrr
; cor=; Ncor=
a 42 29 107 0 108 101 107 0 33 38
c 20 27 0 0 0 0 0 0 25 23
g 27 34 1 107 0 0 1 105 29 35
t 19 18 0 1 0 7 0 3 21 12
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1) |
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; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; wsTACAGTArw
; Alignment reference
a 114 74 11 274 5 256 15 19 270 83 99
c 53 83 17 14 295 10 18 17 15 76 61
g 62 91 16 8 5 10 272 8 16 91 66
t 82 63 267 15 6 35 6 267 10 61 85
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| oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1) |
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; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wsTACAGTArw
; cor=; Ncor=
a 114 74 11 274 5 256 15 19 270 83 99
c 53 83 17 14 295 10 18 17 15 76 61
g 62 91 16 8 5 10 272 8 16 91 66
t 82 63 267 15 6 35 6 267 10 61 85
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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) |
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; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; mcACCACCas
; Alignment reference
a 29 19 116 0 0 105 0 0 36 27
c 40 47 0 116 108 3 116 116 28 30
g 28 25 0 0 3 3 0 0 26 32
t 19 25 0 0 5 5 0 0 26 27
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| oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2) |
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; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; mcACCACCas
; cor=; Ncor=
a 29 19 116 0 0 105 0 0 36 27
c 40 47 0 116 108 3 116 116 28 30
g 28 25 0 0 3 3 0 0 26 32
t 19 25 0 0 5 5 0 0 26 27
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1) |
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; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; waTAATTAtw
; Alignment reference
a 63 94 7 152 163 11 32 168 39 65
c 30 19 1 0 4 6 0 7 32 27
g 28 31 6 0 6 2 0 1 19 28
t 63 40 170 32 11 165 152 8 94 64
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| oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1) |
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; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; waTAATTAtw
; cor=; Ncor=
a 63 94 7 152 163 11 32 168 39 65
c 30 19 1 0 4 6 0 7 32 27
g 28 31 6 0 6 2 0 1 19 28
t 63 40 170 32 11 165 152 8 94 64
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