One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_8nt_mkv2_m2/peak-motifs_oligos_8nt_mkv2_m2.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.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/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/oligos_8nt_mkv2_m2/peak-motifs_oligos_8nt_mkv2_m2_vs_db_footprintDB-plants
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m2_shift7 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m2_shift7 (oligos_8nt_mkv2_m2) |
 |
|
|
; oligos_8nt_mkv2_m2; m=0 (reference); ncol1=12; shift=7; ncol=19; -------awGAAAAGGCww
; Alignment reference
a 0 0 0 0 0 0 0 20 14 2 46 44 45 44 4 1 5 26 22
c 0 0 0 0 0 0 0 9 5 1 0 3 0 0 1 1 38 5 6
g 0 0 0 0 0 0 0 9 9 43 1 2 2 0 43 45 3 3 5
t 0 0 0 0 0 0 0 11 21 3 2 0 2 5 1 2 3 15 16
|