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.2025-05-16.184343_2025-05-16.184343_1fYTf9/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.2025-05-16.184343_2025-05-16.184343_1fYTf9/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_shift6 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift6 (oligos_6nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=13; shift=6; ncol=19; ------svgCCCGGCggss
; Alignment reference
a 0 0 0 0 0 0 16 27 13 3 5 5 3 3 2 7 14 10 9
c 0 0 0 0 0 0 39 27 11 87 83 87 9 11 91 21 24 34 37
g 0 0 0 0 0 0 31 29 67 9 9 8 87 85 3 60 49 41 38
t 0 0 0 0 0 0 15 18 10 2 4 1 2 2 5 13 14 16 17
|
| MA2328.1_shift5 (ZBED4) |
 |
|
|
; oligos_6nt_mkv2_m1 versus MA2328.1 (ZBED4); m=1/2; ncol2=10; w=-1; offset=-1; strand=D; shift=5; score=0.463893; -----CcCGCyCCGC----
; cor=; Ncor=
a 0 0 0 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 0 0
c 0 0 0 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 0 0
g 0 0 0 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 0 0
t 0 0 0 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0 0 0
|
| MA1722.2_shift0 (ZSCAN31) |
 |
|
|
; oligos_6nt_mkv2_m1 versus MA1722.2 (ZSCAN31); m=2/2; ncol2=18; w=-6; offset=-6; strand=D; shift=0; score=0.443256; GCATAAyTGCCCTGCkkC-
; cor=; Ncor=
a 1041.0 51.0 6693.0 3.0 6722.0 7143.0 38.0 42.0 11.0 9.0 51.0 28.0 37.0 22.0 28.0 1811.0 1651.0 640.0 0
c 108.0 6741.0 1563.0 1.0 2.0 6.0 6451.0 11.0 80.0 7141.0 7066.0 7073.0 438.0 0.0 7114.0 173.0 1112.0 6344.0 0
g 6160.0 152.0 12.0 0.0 1.0 70.0 3.0 960.0 7077.0 9.0 14.0 122.0 26.0 7143.0 3.0 4197.0 3084.0 457.0 0
t 1529.0 1353.0 4.0 7148.0 1660.0 0.0 3376.0 6181.0 90.0 22.0 291.0 69.0 6989.0 10.0 120.0 2569.0 3109.0 990.0 0
|