One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_8nt_mkv1_m1/peak-motifs_oligos_8nt_mkv1_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_plants_non-redundant_pfms_transfac.txt -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/2025/11/07/peak-motifs.2025-11-07.144553_2025-11-07.144553_0jTHd8/results/discovered_motifs/oligos_8nt_mkv1_m1/peak-motifs_oligos_8nt_mkv1_m1_vs_db_JASPAR2024_CORE_plants_non-redundant
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv1_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv1_m1_shift0 (oligos_8nt_mkv1_m1) |
 |
|
|
; oligos_8nt_mkv1_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; ybCTGTGGAAkh
; Alignment reference
a 0 0 0 0 0 0 0 0 3 3 0 1
c 2 1 3 0 0 0 0 0 0 0 0 1
g 0 1 0 0 3 0 3 3 0 0 1 0
t 1 1 0 3 0 3 0 0 0 0 2 1
|
| MA2021.2_rc_shift1 (LBD13_rc) |
 |
|
|
; oligos_8nt_mkv1_m1 versus MA2021.2_rc (LBD13_rc); m=1/1; ncol2=8; w=0; offset=1; strand=R; shift=1; score=0.476709; -aCGGTGGa---
; cor=; Ncor=
a 0 628.0 18.0 8.0 9.0 72.0 17.0 39.0 635.0 0 0 0
c 0 143.0 980.0 16.0 8.0 168.0 4.0 20.0 145.0 0 0 0
g 0 227.0 11.0 1021.0 1031.0 6.0 1018.0 979.0 44.0 0 0 0
t 0 57.0 46.0 10.0 7.0 809.0 16.0 17.0 231.0 0 0 0
|