One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/05/29/peak-motifs.2026-05-29.200826_2026-05-29.200826_3Thh4P/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/2026/05/29/peak-motifs.2026-05-29.200826_2026-05-29.200826_3Thh4P/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
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) |
 |
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; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; krCTCCACck
; Alignment reference
a 6 10 0 0 1 0 32 0 6 6
c 3 6 32 0 31 32 0 32 14 7
g 8 10 0 0 0 0 0 0 6 8
t 15 6 0 32 0 0 0 0 6 11
|
| 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; krCTCCACck
; cor=; Ncor=
a 6 10 0 0 1 0 32 0 6 6
c 3 6 32 0 31 32 0 32 14 7
g 8 10 0 0 0 0 0 0 6 8
t 15 6 0 32 0 0 0 0 6 11
|
| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.878169; tsCTCCACCk
; cor=; Ncor=
a 19 20 5 5 1 2 75 2 6 20
c 12 21 77 0 77 75 1 72 67 11
g 20 29 2 4 5 5 4 4 6 31
t 33 14 0 75 1 2 4 6 5 22
|
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) |
 |
|
|
; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; sgCTGCTCmt
; Alignment reference
a 6 5 0 0 2 0 0 0 7 6
c 8 4 25 0 0 25 0 25 8 4
g 7 10 0 0 23 0 0 0 6 6
t 4 6 0 25 0 0 25 0 4 9
|
| 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; sgCTGCTCmt
; cor=; Ncor=
a 6 5 0 0 2 0 0 0 7 6
c 8 4 25 0 0 25 0 25 8 4
g 7 10 0 0 23 0 0 0 6 6
t 4 6 0 25 0 0 25 0 4 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; tsCTCCACCkb
; Alignment reference
a 19 20 5 5 1 2 75 2 6 20 18
c 12 21 77 0 77 75 1 72 67 11 21
g 20 29 2 4 5 5 4 4 6 31 23
t 33 14 0 75 1 2 4 6 5 22 22
|
| 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; tsCTCCACCkb
; cor=; Ncor=
a 19 20 5 5 1 2 75 2 6 20 18
c 12 21 77 0 77 75 1 72 67 11 21
g 20 29 2 4 5 5 4 4 6 31 23
t 33 14 0 75 1 2 4 6 5 22 22
|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
|
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; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=2/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.878169; krCTCCACck-
; cor=; Ncor=
a 6 10 0 0 1 0 32 0 6 6 0
c 3 6 32 0 31 32 0 32 14 7 0
g 8 10 0 0 0 0 0 0 6 8 0
t 15 6 0 32 0 0 0 0 6 11 0
|