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_m1/peak-motifs_oligos_7nt_mkv2_m1.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_m1/peak-motifs_oligos_7nt_mkv2_m1_vs_db_footprintDB-plants
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift4 (oligos_7nt_mkv2_m1) |
 |
|
|
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wtCCTCTTCww
; Alignment reference
a 0 0 0 0 32 29 6 14 6 2 8 0 7 46 36
c 0 0 0 0 27 28 107 101 8 105 10 1 113 26 27
g 0 0 0 0 12 16 1 1 0 0 3 0 1 7 15
t 0 0 0 0 54 52 11 9 111 18 104 124 4 46 47
|