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.2025-05-16.175219_2025-05-16.175219_UyZibC/results/discovered_motifs/oligos_7nt_mkv2_m4/peak-motifs_oligos_7nt_mkv2_m4.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.2025-05-16.175219_2025-05-16.175219_UyZibC/results/discovered_motifs/oligos_7nt_mkv2_m4/peak-motifs_oligos_7nt_mkv2_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
 |
|
|
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=13; shift=0; ncol=13; AwATATAATATAT
; Alignment reference
a 38 14 49 2 46 5 41 41 3 44 5 36 8
c 1 3 0 1 0 1 1 1 1 1 6 1 6
g 2 1 1 0 3 0 1 0 1 3 2 7 2
t 9 32 0 47 1 44 7 8 45 2 37 6 34
|
| MA0108.3_shift1 (TBP) |
 |
|
|
; oligos_7nt_mkv2_m4 versus MA0108.3 (TBP); m=1/2; ncol2=7; w=0; offset=1; strand=D; shift=1; score=0.469013; -TATAWAw-----
; cor=; Ncor=
a 0 16.0 352.0 3.0 354.0 268.0 360.0 222.0 0 0 0 0 0
c 0 46.0 0.0 10.0 0.0 0.0 3.0 2.0 0 0 0 0 0
g 0 18.0 2.0 2.0 5.0 0.0 20.0 44.0 0 0 0 0 0
t 0 309.0 35.0 374.0 30.0 121.0 6.0 121.0 0 0 0 0 0
|
| MA0602.2_shift5 (Arid5a) |
 |
|
|
; oligos_7nt_mkv2_m4 versus MA0602.2 (Arid5a); m=2/2; ncol2=8; w=0; offset=5; strand=D; shift=5; score=0.45964; -----yAATATTg
; cor=; Ncor=
a 0 0 0 0 0 16.0 85.0 96.0 6.0 93.0 2.0 4.0 23.0
c 0 0 0 0 0 32.0 3.0 0.0 0.0 1.0 1.0 9.0 3.0
g 0 0 0 0 0 3.0 7.0 1.0 1.0 1.0 1.0 4.0 52.0
t 0 0 0 0 0 48.0 5.0 2.0 93.0 6.0 96.0 83.0 22.0
|