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.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_6nt_mkv2_m1/peak-motifs_oligos_6nt_mkv2_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.2026-04-21.014834_2026-04-21.014834_X2uSrl/results/discovered_motifs/oligos_6nt_mkv2_m1/peak-motifs_oligos_6nt_mkv2_m1_vs_db_JASPAR2024_CORE_nematodes_non-redundant
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift3 (oligos_6nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=10; shift=3; ncol=13; ---hwATACTAaw
; Alignment reference
a 0 0 0 24 37 76 0 76 0 0 76 44 38
c 0 0 0 21 11 0 0 0 76 0 0 6 1
g 0 0 0 3 4 0 0 0 0 0 0 12 9
t 0 0 0 28 24 0 76 0 0 76 0 14 28
|
| MA2183.1_shift0 (nhr-33) |
 |
|
|
; oligos_6nt_mkv2_m1 versus MA2183.1 (nhr-33); m=1/1; ncol2=13; w=-3; offset=-3; strand=D; shift=0; score=0.589805; wsTACAwACTAsw
; cor=; Ncor=
a 27.0 0.0 0.0 90.0 0.0 100.0 38.0 100.0 0.0 3.0 93.0 8.0 32.0
c 0.0 35.0 13.0 2.0 92.0 0.0 5.0 0.0 93.0 3.0 0.0 35.0 8.0
g 6.0 53.0 0.0 2.0 5.0 0.0 0.0 0.0 6.0 0.0 0.0 51.0 5.0
t 66.0 11.0 86.0 5.0 2.0 0.0 56.0 0.0 0.0 93.0 6.0 5.0 54.0
|