One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_nematodes_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/2026/04/21/peak-motifs.2026-04-21.015247_2026-04-21.015247_DTyOML/results/discovered_motifs/positions_6nt_m1/peak-motifs_positions_6nt_m1_vs_db_JASPAR2024_CORE_nematodes_non-redundant
One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6nt_m1_shift0 (positions_6nt_m1) |
 |
|
|
; positions_6nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; vwAAAATTCwr
; Alignment reference
a 22 27 81 75 78 79 0 11 4 23 24
c 24 14 1 0 1 2 0 0 78 2 12
g 22 6 0 0 0 1 1 0 0 17 37
t 14 35 0 7 3 0 81 71 0 40 9
|
| MA2179.1_rc_shift2 (ceh-10_rc) |
 |
|
|
; positions_6nt_m1 versus MA2179.1_rc (ceh-10_rc); m=1/1; ncol2=11; w=0; offset=2; strand=R; shift=2; score=0.500354; --AwAATTwdm
; cor=; Ncor=
a 0 0 75.0 47.0 85.0 91.0 8.0 0.0 64.0 25.0 36.0
c 0 0 0.0 0.0 0.0 0.0 0.0 8.0 0.0 7.0 50.0
g 0 0 8.0 0.0 7.0 8.0 0.0 0.0 0.0 39.0 0.0
t 0 0 16.0 52.0 7.0 0.0 91.0 91.0 35.0 28.0 13.0
|