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.2026-01-25.180905_2026-01-25.180905_kvVFaU/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.2026-01-25.180905_2026-01-25.180905_kvVFaU/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_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6-8nt_m1_shift1 (positions_6-8nt_m1) |
 |
|
|
; positions_6-8nt_m1; m=0 (reference); ncol1=10; shift=1; ncol=11; -rtATAGGAww
; Alignment reference
a 0 170 118 470 0 527 4 9 441 146 185
c 0 110 78 26 1 3 18 0 4 98 104
g 0 138 114 34 14 4 489 429 35 128 95
t 0 116 224 4 519 0 23 96 54 162 150
|
| br-Z2_rc_shift0 (br-Z2_rc) |
 |
|
|
; positions_6-8nt_m1 versus br-Z2_rc; m=1/1; ncol2=7; w=-1; offset=-1; strand=R; shift=0; score=0.498118; twaaTAG----
; cor=; Ncor=
a 5 9 12 11 0 21 1 0 0 0 0
c 4 1 3 3 0 0 0 0 0 0 0
g 0 3 1 3 0 0 20 0 0 0 0
t 12 8 5 4 21 0 0 0 0 0 0
|