One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175855_2025-05-16.175855_ID8f2H/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/2025/05/16/peak-motifs.2025-05-16.175855_2025-05-16.175855_ID8f2H/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv1_m1_shift0 (oligos_6nt_mkv1_m1) |
 |
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; oligos_6nt_mkv1_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; skCGsCGAmm
; Alignment reference
a 0 1 0 0 1 0 0 8 4 3
c 5 1 10 0 3 10 0 0 3 3
g 3 4 0 10 6 0 10 1 2 2
t 2 4 0 0 0 0 0 1 1 2
|
| oligos_6nt_mkv1_m1_shift0 (oligos_6nt_mkv1_m1) |
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; oligos_6nt_mkv1_m1 versus oligos_6nt_mkv1_m1; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; skCGsCGAmm
; cor=; Ncor=
a 0 1 0 0 1 0 0 8 4 3
c 5 1 10 0 3 10 0 0 3 3
g 3 4 0 10 6 0 10 1 2 2
t 2 4 0 0 0 0 0 1 1 2
|
| oligos_7nt_mkv1_m2_shift0 (oligos_7nt_mkv1_m2) |
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; oligos_6nt_mkv1_m1 versus oligos_7nt_mkv1_m2; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.857456; ckCGGCGAAc
; cor=; Ncor=
a 0 1 0 0 0 0 0 4 4 1
c 3 0 5 0 0 5 0 0 1 2
g 1 2 0 5 5 0 5 0 0 1
t 1 2 0 0 0 0 0 1 0 1
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m2_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m2_shift0 (oligos_7nt_mkv1_m2) |
|
|
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; oligos_7nt_mkv1_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; ckCGGCGAAct
; Alignment reference
a 0 1 0 0 0 0 0 4 4 1 1
c 3 0 5 0 0 5 0 0 1 2 1
g 1 2 0 5 5 0 5 0 0 1 1
t 1 2 0 0 0 0 0 1 0 1 2
|
| oligos_7nt_mkv1_m2_shift0 (oligos_7nt_mkv1_m2) |
|
|
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; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m2; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ckCGGCGAAct
; cor=; Ncor=
a 0 1 0 0 0 0 0 4 4 1 1
c 3 0 5 0 0 5 0 0 1 2 1
g 1 2 0 5 5 0 5 0 0 1 1
t 1 2 0 0 0 0 0 1 0 1 2
|
| oligos_6nt_mkv1_m1_shift0 (oligos_6nt_mkv1_m1) |
|
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; oligos_7nt_mkv1_m2 versus oligos_6nt_mkv1_m1; m=2/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.857456; skCGsCGAmm-
; cor=; Ncor=
a 0 1 0 0 1 0 0 8 4 3 0
c 5 1 10 0 3 10 0 0 3 3 0
g 3 4 0 10 6 0 10 1 2 2 0
t 2 4 0 0 0 0 0 1 1 2 0
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m1_shift0 (oligos_7nt_mkv1_m1) |
 |
|
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; oligos_7nt_mkv1_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; kmACAGGTGag
; Alignment reference
a 0 2 5 0 5 0 0 0 0 2 1
c 0 3 0 5 0 0 0 0 0 1 1
g 2 0 0 0 0 5 5 0 5 1 2
t 3 0 0 0 0 0 0 5 0 1 1
|
| oligos_7nt_mkv1_m1_shift0 (oligos_7nt_mkv1_m1) |
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; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m1; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; kmACAGGTGag
; cor=; Ncor=
a 0 2 5 0 5 0 0 0 0 2 1
c 0 3 0 5 0 0 0 0 0 1 1
g 2 0 0 0 0 5 5 0 5 1 2
t 3 0 0 0 0 0 0 5 0 1 1
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