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.2026-01-25.180830_2026-01-25.180830_qbHDLg/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_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/2026/01/25/peak-motifs.2026-01-25.180830_2026-01-25.180830_qbHDLg/results/discovered_motifs/oligos_6-8nt_m3/peak-motifs_oligos_6-8nt_m3_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m3_shift0 (oligos_6-8nt_m3) |
 |
|
|
; oligos_6-8nt_m3; m=0 (reference); ncol1=10; shift=0; ncol=10; atAGATACww
; Alignment reference
a 1239 519 3086 11 2979 0 3234 30 1203 884
c 563 739 96 127 61 1 19 2879 573 801
g 810 569 62 2371 119 42 0 96 585 661
t 647 1432 15 750 100 3216 6 254 898 913
|
| br-Z1_shift3 (br-Z1) |
 |
|
|
; oligos_6-8nt_m3 versus br-Z1; m=1/1; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.455515; ---raTaCwA
; cor=; Ncor=
a 0 0 0 10.5882 11.6471 2.11765 11.6471 3.17647 9.52941 15.8824
c 0 0 0 0 0 0 3.17647 12.7059 1.05882 2.11765
g 0 0 0 7.41176 3.17647 1.05882 3.17647 2.11765 0 0
t 0 0 0 0 3.17647 14.8235 0 0 7.41176 0
|