One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.184256_2025-05-16.184256_DOHBqC/results/discovered_motifs/oligos_7nt_mkv1_m2/peak-motifs_oligos_7nt_mkv1_m2.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_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/2025/05/16/peak-motifs.2025-05-16.184256_2025-05-16.184256_DOHBqC/results/discovered_motifs/oligos_7nt_mkv1_m2/peak-motifs_oligos_7nt_mkv1_m2_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m2_shift0 (oligos_7nt_mkv1_m2) |
 |
|
|
; oligos_7nt_mkv1_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; drCAGAGAGrv
; Alignment reference
a 2 2 0 7 0 7 0 7 0 3 2
c 0 1 7 0 0 0 0 0 0 1 2
g 3 3 0 0 7 0 7 0 6 2 2
t 2 1 0 0 0 0 0 0 1 1 1
|
| MA1731.2_rc_shift2 (ZNF768_rc) |
 |
|
|
; oligos_7nt_mkv1_m2 versus MA1731.2_rc (ZNF768_rc); m=1/1; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.772426; --CAGAGAgGs
; cor=; Ncor=
a 0 0 1.0 987.0 1.0 945.0 20.0 917.0 123.0 141.0 43.0
c 0 0 973.0 11.0 11.0 43.0 29.0 11.0 179.0 62.0 268.0
g 0 0 25.0 1.0 987.0 6.0 950.0 39.0 655.0 768.0 478.0
t 0 0 1.0 1.0 1.0 6.0 1.0 34.0 43.0 29.0 211.0
|