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_6nt_mkv2_m1/peak-motifs_oligos_6nt_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_6nt_mkv2_m1/peak-motifs_oligos_6nt_mkv2_m1_vs_db_footprintDB-plants
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift4 (oligos_6nt_mkv2_m1) |
 |
|
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; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=12; shift=4; ncol=16; ----wdGGGACAgaaw
; Alignment reference
a 0 0 0 0 21 21 3 3 1 54 4 50 10 32 24 22
c 0 0 0 0 7 4 2 2 0 1 53 1 9 7 10 10
g 0 0 0 0 9 15 52 49 57 2 1 7 34 6 11 9
t 0 0 0 0 22 19 2 5 1 2 1 1 6 14 14 18
|