One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.180941_2026-01-25.180941_K9UVGH/results/discovered_motifs/positions_6-8nt_m1/peak-motifs_positions_6-8nt_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/dmmpmm_PCM.tf -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/2026/01/25/peak-motifs.2026-01-25.180941_2026-01-25.180941_K9UVGH/results/discovered_motifs/positions_6-8nt_m1/peak-motifs_positions_6-8nt_m1_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: positions_6-8nt_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6-8nt_m1_shift0 (positions_6-8nt_m1) |
 |
|
|
; positions_6-8nt_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; kyCGCCGCyg
; Alignment reference
a 107 85 0 1 0 0 0 0 88 108
c 88 148 448 4 448 448 1 448 166 110
g 137 102 0 434 0 0 443 0 68 137
t 116 113 0 9 0 0 4 0 126 93
|
| brk_shift0 (brk) |
 |
|
|
; positions_6-8nt_m1 versus brk; m=1/2; ncol2=7; w=0; offset=0; strand=D; shift=0; score=0.580827; rGCGCCr---
; cor=; Ncor=
a 4.4 2.2 0 0 0 0 5.5 0 0 0
c 0 0 9.9 0 11 11 0 0 0 0
g 6.6 8.8 0 9.9 0 0 5.5 0 0 0
t 0 0 1.1 1.1 0 0 0 0 0 0
|
| Mad_shift2 (Mad) |
 |
|
|
; positions_6-8nt_m1 versus Mad; m=2/2; ncol2=11; w=0; offset=2; strand=D; shift=2; score=0.472012; --CGmsrCgm
; cor=; Ncor=
a 0 0 3 1 7 1 6 2 3 6
c 0 0 15 0 11 7 3 14 1 8
g 0 0 1 17 1 8 10 0 12 2
t 0 0 0 1 0 3 0 3 3 3
|