One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_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/2025/06/19/peak-motifs.2025-06-19.091929_2025-06-19.091929_ZGCM7J/results/discovered_motifs/oligos_6-8nt_m5/peak-motifs_oligos_6-8nt_m5_vs_db_footprintDB-plants
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m5_shift7 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m5_shift7 (oligos_6-8nt_m5) |
 |
|
|
; oligos_6-8nt_m5; m=0 (reference); ncol1=13; shift=7; ncol=20; -------bscCCCATGCAbs
; Alignment reference
a 0 0 0 0 0 0 0 12 19 9 2 2 2 95 3 3 3 86 23 17
c 0 0 0 0 0 0 0 32 26 67 90 89 91 3 3 6 92 7 26 35
g 0 0 0 0 0 0 0 30 41 12 1 3 3 1 1 87 3 7 25 32
t 0 0 0 0 0 0 0 26 14 12 7 6 4 1 93 4 2 0 26 16
|