One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.164132_2026-03-30.164132_qGS9No/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/2026/03/30/peak-motifs.2026-03-30.164132_2026-03-30.164132_qGS9No/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv1_m2_shift0 (oligos_6nt_mkv1_m2) |
 |
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; oligos_6nt_mkv1_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; kmAGGGTCyw
; Alignment reference
a 4 11 42 0 0 0 0 0 6 16
c 10 18 0 2 0 0 0 42 17 7
g 13 10 0 40 42 42 0 0 7 7
t 15 3 0 0 0 0 42 0 12 12
|
| oligos_6nt_mkv1_m2_shift0 (oligos_6nt_mkv1_m2) |
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; oligos_6nt_mkv1_m2 versus oligos_6nt_mkv1_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; kmAGGGTCyw
; cor=; Ncor=
a 4 11 42 0 0 0 0 0 6 16
c 10 18 0 2 0 0 0 42 17 7
g 13 10 0 40 42 42 0 0 7 7
t 15 3 0 0 0 0 42 0 12 12
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv1_m1_shift0 (oligos_6nt_mkv1_m1) |
 |
|
|
; oligos_6nt_mkv1_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; wyaGGCTAAAthch
; Alignment reference
a 17 9 37 0 1 3 3 60 53 50 7 20 14 16
c 12 26 10 2 4 56 0 0 3 1 9 16 18 18
g 11 5 6 60 56 2 1 2 2 4 5 8 15 11
t 22 22 9 0 1 1 58 0 4 7 41 18 15 17
|
| oligos_6nt_mkv1_m1_shift0 (oligos_6nt_mkv1_m1) |
|
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; oligos_6nt_mkv1_m1 versus oligos_6nt_mkv1_m1; m=1/1; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; wyaGGCTAAAthch
; cor=; Ncor=
a 17 9 37 0 1 3 3 60 53 50 7 20 14 16
c 12 26 10 2 4 56 0 0 3 1 9 16 18 18
g 11 5 6 60 56 2 1 2 2 4 5 8 15 11
t 22 22 9 0 1 1 58 0 4 7 41 18 15 17
|