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_m5/peak-motifs_oligos_8nt_mkv2_m5.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_m5/peak-motifs_oligos_8nt_mkv2_m5_vs_db_footprintDB-plants
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m5_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m5_shift5 (oligos_8nt_mkv2_m5) |
 |
|
|
; oligos_8nt_mkv2_m5; m=0 (reference); ncol1=12; shift=5; ncol=17; -----wrGTGGAGGArr
; Alignment reference
a 0 0 0 0 0 15 15 1 9 0 3 35 8 2 40 15 21
c 0 0 0 0 0 2 8 0 1 3 0 1 0 0 1 3 4
g 0 0 0 0 0 8 15 42 1 37 39 1 34 40 0 16 12
t 0 0 0 0 0 18 5 0 32 3 1 6 1 1 2 9 6
|