One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.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/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/oligos_7nt_mkv2_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift5 (oligos_7nt_mkv2_m1) |
 |
|
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; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=5; ncol=16; -----kyCGGCAACbt
; Alignment reference
a 0 0 0 0 0 3 8 0 4 3 0 39 39 3 5 8
c 0 0 0 0 0 3 11 41 6 3 39 0 0 39 11 9
g 0 0 0 0 0 11 9 0 29 36 3 0 2 0 12 9
t 0 0 0 0 0 25 14 1 3 0 0 3 1 0 14 16
|