One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/05/27/peak-motifs.2026-05-27.215012_2026-05-27.215012_WiGkpW/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/2026/05/27/peak-motifs.2026-05-27.215012_2026-05-27.215012_WiGkpW/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
 |
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; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; mhCCGCCCyh
; Alignment reference
a 13 12 0 2 3 3 2 2 11 12
c 17 12 41 38 1 40 40 40 14 14
g 5 6 0 2 40 0 0 0 8 6
t 10 15 4 3 1 2 3 3 12 13
|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
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; oligos_6nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; mhCCGCCCyh
; cor=; Ncor=
a 13 12 0 2 3 3 2 2 11 12
c 17 12 41 38 1 40 40 40 14 14
g 5 6 0 2 40 0 0 0 8 6
t 10 15 4 3 1 2 3 3 12 13
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; trTACATAwr
; Alignment reference
a 6 9 0 27 0 27 0 27 9 10
c 5 5 0 0 27 0 0 0 3 4
g 2 7 0 0 0 0 0 0 0 9
t 14 6 27 0 0 0 27 0 15 4
|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; trTACATAwr
; cor=; Ncor=
a 6 9 0 27 0 27 0 27 9 10
c 5 5 0 0 27 0 0 0 3 4
g 2 7 0 0 0 0 0 0 0 9
t 14 6 27 0 0 0 27 0 15 4
|
| oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc) |
 |
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; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1_rc; m=2/2; ncol2=11; w=0; offset=0; strand=R; shift=0; score=0.875309; wrTACATATr
; cor=; Ncor=
a 21 24 5 61 1 62 2 61 4 28
c 14 16 5 2 56 2 2 2 2 10
g 5 17 0 1 2 4 1 4 0 21
t 28 11 58 4 9 0 63 1 62 9
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
 |
|
|
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; kyCCTCCTCvc
; Alignment reference
a 5 7 0 1 0 3 0 1 1 9 7
c 7 9 27 31 2 28 27 1 28 10 14
g 11 7 2 0 1 0 2 2 1 8 4
t 9 9 3 0 29 1 3 28 2 5 7
|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
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; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; kyCCTCCTCvc
; cor=; Ncor=
a 5 7 0 1 0 3 0 1 1 9 7
c 7 9 27 31 2 28 27 1 28 10 14
g 11 7 2 0 1 0 2 2 1 8 4
t 9 9 3 0 29 1 3 28 2 5 7
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3) |
 |
|
|
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=10; shift=0; ncol=10; vkACTTACam
; Alignment reference
a 4 2 14 0 1 1 15 0 10 6
c 6 2 0 15 1 0 0 15 2 7
g 4 5 0 0 2 0 0 0 0 0
t 1 6 1 0 11 14 0 0 3 2
|
| oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3) |
|
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; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; vkACTTACam
; cor=; Ncor=
a 4 2 14 0 1 1 15 0 10 6
c 6 2 0 15 1 0 0 15 2 7
g 4 5 0 0 2 0 0 0 0 0
t 1 6 1 0 11 14 0 0 3 2
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
 |
|
|
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; daCCTAATCks
; Alignment reference
a 9 13 3 0 1 33 31 0 2 6 4
c 6 7 25 34 0 0 3 0 31 7 12
g 9 7 3 1 4 0 0 1 0 11 12
t 11 8 4 0 30 2 1 34 2 11 7
|
| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
|
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; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; daCCTAATCks
; cor=; Ncor=
a 9 13 3 0 1 33 31 0 2 6 4
c 6 7 25 34 0 0 3 0 31 7 12
g 9 7 3 1 4 0 0 1 0 11 12
t 11 8 4 0 30 2 1 34 2 11 7
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
 |
|
|
; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; bwCACTCAmw
; Alignment reference
a 6 13 0 34 0 7 0 31 11 20
c 11 5 36 1 36 0 36 1 15 4
g 9 8 0 0 0 0 0 1 5 2
t 10 10 0 1 0 29 0 3 5 10
|
| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
|
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; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; bwCACTCAmw
; cor=; Ncor=
a 6 13 0 34 0 7 0 31 11 20
c 11 5 36 1 36 0 36 1 15 4
g 9 8 0 0 0 0 0 1 5 2
t 10 10 0 1 0 29 0 3 5 10
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
 |
|
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; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; rtGGGTCAwd
; Alignment reference
a 9 8 2 2 0 5 1 26 13 10
c 8 7 0 0 0 0 30 2 8 5
g 10 6 32 32 34 0 1 2 2 10
t 7 13 0 0 0 29 2 4 11 9
|
| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
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; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; rtGGGTCAwd
; cor=; Ncor=
a 9 8 2 2 0 5 1 26 13 10
c 8 7 0 0 0 0 30 2 8 5
g 10 6 32 32 34 0 1 2 2 10
t 7 13 0 0 0 29 2 4 11 9
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
 |
|
|
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ayATATGTAyw
; Alignment reference
a 35 9 62 1 63 0 9 4 58 11 28
c 8 21 0 4 1 4 2 1 0 17 5
g 14 10 2 2 2 2 56 2 5 16 14
t 11 28 4 61 2 62 1 61 5 24 21
|
| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
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; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ayATATGTAyw
; cor=; Ncor=
a 35 9 62 1 63 0 9 4 58 11 28
c 8 21 0 4 1 4 2 1 0 17 5
g 14 10 2 2 2 2 56 2 5 16 14
t 11 28 4 61 2 62 1 61 5 24 21
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| oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc) |
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; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1_rc; m=2/2; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.875309; -ywTATGTAya
; cor=; Ncor=
a 0 4 15 0 27 0 0 0 27 6 14
c 0 9 0 0 0 0 0 0 0 7 2
g 0 4 3 0 0 0 27 0 0 5 5
t 0 10 9 27 0 27 0 27 0 9 6
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2) |
 |
|
|
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; ywCTCGCTCwc
; Alignment reference
a 4 14 2 0 0 6 2 2 2 17 9
c 22 7 47 1 48 2 48 2 46 8 22
g 12 11 2 2 1 37 1 1 2 8 9
t 14 20 1 49 3 7 1 47 2 19 12
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| oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2) |
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; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ywCTCGCTCwc
; cor=; Ncor=
a 4 14 2 0 0 6 2 2 2 17 9
c 22 7 47 1 48 2 48 2 46 8 22
g 12 11 2 2 1 37 1 1 2 8 9
t 14 20 1 49 3 7 1 47 2 19 12
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