One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DrosophilaTFs/DrosophilaTFs_2015-11-06.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/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_6nt_mkv4_m8/peak-motifs_oligos_6nt_mkv4_m8_vs_db_DrosophilaTFs
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m8_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m8_shift0 (oligos_6nt_mkv4_m8) |
 |
|
|
; oligos_6nt_mkv4_m8; m=0 (reference); ncol1=10; shift=0; ncol=10; mrCAAAACam
; Alignment reference
a 588 575 0 1505 1527 1517 1531 0 700 535
c 401 285 1520 0 0 0 0 1533 288 428
g 275 408 0 3 0 1 0 0 317 327
t 269 265 13 25 6 15 2 0 228 243
|
| 4953_br-Z3_DrosophilaTF_1.1__shift3 (4953_br-Z3_DrosophilaTF_1.1_) |
 |
|
|
; oligos_6nt_mkv4_m8 versus 4953_br-Z3_DrosophilaTF_1.1_; m=1/2; ncol2=9; w=0; offset=3; strand=D; shift=3; score=0.510925; ---wAAACww
; cor=; Ncor=
a 0 0 0 50 1 1 1 0 50 50
c 0 0 0 0 0 0 0 1 0 0
g 0 0 0 0 0 0 0 0 0 0
t 0 0 0 50 0 0 0 0 50 50
|
| 4958_croc_DrosophilaTF_1.1__shift1 (4958_croc_DrosophilaTF_1.1_) |
 |
|
|
; oligos_6nt_mkv4_m8 versus 4958_croc_DrosophilaTF_1.1_; m=2/2; ncol2=6; w=0; offset=1; strand=D; shift=1; score=0.422479; -rTAAAA---
; cor=; Ncor=
a 0 67 0 1 1 80 1 0 0 0
c 0 0 0 0 0 20 0 0 0 0
g 0 33 0 0 0 0 0 0 0 0
t 0 0 1 0 0 0 0 0 0 0
|