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.2025-05-16.184201_2025-05-16.184201_aBOVlS/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_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.2025-05-16.184201_2025-05-16.184201_aBOVlS/results/discovered_motifs/oligos_6nt_mkv2_m1/peak-motifs_oligos_6nt_mkv2_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=18; shift=0; ncol=18; mmsCCGCSGCSGCGGskk
; Alignment reference
a 37 37 22 20 18 5 2 2 6 4 0 3 1 3 4 3 5 15
c 34 40 40 69 69 4 87 71 1 88 25 6 88 8 4 32 15 12
g 13 16 33 6 8 88 6 25 90 1 71 87 4 72 74 44 43 35
t 14 5 3 3 3 1 3 0 1 5 2 2 5 15 16 19 35 36
|
| MA1721.2_shift1 (ZNF93) |
 |
|
|
; oligos_6nt_mkv2_m1 versus MA1721.2 (ZNF93); m=1/1; ncol2=14; w=0; offset=1; strand=D; shift=1; score=0.559418; -gGyrkCrGCAGCGG---
; cor=; Ncor=
a 0 467.0 175.0 117.0 1455.0 61.0 38.0 1001.0 18.0 23.0 1659.0 30.0 19.0 340.0 72.0 0 0 0
c 0 279.0 233.0 1120.0 177.0 114.0 2278.0 92.0 26.0 2279.0 96.0 20.0 2292.0 138.0 134.0 0 0 0
g 0 1499.0 1857.0 211.0 663.0 1483.0 22.0 1263.0 2334.0 42.0 576.0 2328.0 33.0 1784.0 2145.0 0 0 0
t 0 143.0 123.0 940.0 93.0 730.0 50.0 32.0 10.0 44.0 57.0 10.0 44.0 126.0 37.0 0 0 0
|