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_m3/peak-motifs_oligos_6nt_mkv4_m3.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/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_6nt_mkv4_m3/peak-motifs_oligos_6nt_mkv4_m3_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m3_shift0 (oligos_6nt_mkv4_m3) |
 |
|
|
; oligos_6nt_mkv4_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; mrCTGTCAaamg
; Alignment reference
a 526 362 41 28 74 16 39 1314 942 891 393 301
c 353 229 1319 34 50 45 1321 36 139 210 434 341
g 252 522 20 27 1237 28 21 34 168 140 278 427
t 281 299 32 1323 51 1323 31 28 163 171 307 343
|
| gt_shift4 (gt) |
 |
|
|
; oligos_6nt_mkv4_m3 versus gt; m=1/1; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.427456; ----GTmAwAW-
; cor=; Ncor=
a 0 0 0 0 0 1 5 8 3 8 6 0
c 0 0 0 0 1 1 3 0 0 0 0 0
g 0 0 0 0 7 0 0 0 0 0 0 0
t 0 0 0 0 0 6 0 0 5 0 2 0
|