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.2026-01-25.184326_2026-01-25.184326_ptOhrJ/results/discovered_motifs/positions_6-8nt_m4/peak-motifs_positions_6-8nt_m4.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.2026-01-25.184326_2026-01-25.184326_ptOhrJ/results/discovered_motifs/positions_6-8nt_m4/peak-motifs_positions_6-8nt_m4_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: positions_6-8nt_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6-8nt_m4_shift0 (positions_6-8nt_m4) |
 |
|
|
; positions_6-8nt_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; ggCGGCGChs
; Alignment reference
a 54 38 0 0 0 0 0 0 62 43
c 52 41 235 0 0 235 0 235 68 67
g 86 104 0 235 235 0 235 0 42 82
t 43 52 0 0 0 0 0 0 63 43
|
| brk_rc_shift2 (brk_rc) |
 |
|
|
; positions_6-8nt_m4 versus brk_rc; m=1/1; ncol2=7; w=0; offset=2; strand=R; shift=2; score=0.631842; --yGGCGCy-
; cor=; Ncor=
a 0 0 0 0 0 1.1 1.1 0 0 0
c 0 0 5.5 0 0 9.9 0 8.8 6.6 0
g 0 0 0 11 11 0 9.9 0 0 0
t 0 0 5.5 0 0 0 0 2.2 4.4 0
|