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_7nt_mkv2_m2/peak-motifs_oligos_7nt_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_7nt_mkv2_m2/peak-motifs_oligos_7nt_mkv2_m2_vs_db_footprintDB-plants
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m2_shift5 (oligos_7nt_mkv2_m2) |
 |
|
|
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=5; ncol=16; -----wtCCTTTTCwt
; Alignment reference
a 0 0 0 0 0 34 25 1 0 11 2 2 5 4 31 21
c 0 0 0 0 0 7 15 94 93 2 15 10 5 97 13 19
g 0 0 0 0 0 12 22 1 1 2 0 4 5 0 8 13
t 0 0 0 0 0 48 39 5 7 86 84 85 86 0 49 48
|