One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.075027_2026-01-05.075027_raWB4h/results/discovered_motifs/oligos_6nt_mkv4_m3/peak-motifs_oligos_6nt_mkv4_m3.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/2026/01/05/peak-motifs.2026-01-05.075027_2026-01-05.075027_raWB4h/results/discovered_motifs/oligos_6nt_mkv4_m3/peak-motifs_oligos_6nt_mkv4_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m3_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m3_shift1 (oligos_6nt_mkv4_m3) |
 |
|
|
; oligos_6nt_mkv4_m3; m=0 (reference); ncol1=10; shift=1; ncol=11; -ssCGGCCGss
; Alignment reference
a 0 393 386 81 96 51 86 63 53 357 459
c 0 1492 1091 3099 459 447 2875 2847 226 1631 1113
g 0 1115 1631 226 2837 2875 447 459 3098 1090 1492
t 0 459 351 53 67 86 51 90 82 381 395
|
| MA0131.3_shift2 (HINFP) |
 |
|
|
; oligos_6nt_mkv4_m3 versus MA0131.3 (HINFP); m=1/2; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.569729; --rCGTCCGC-
; cor=; Ncor=
a 0 0 276.0 1.0 0.0 0.0 0.0 0.0 0.0 1.0 0
c 0 0 45.0 388.0 14.0 0.0 404.0 413.0 31.0 395.0 0
g 0 0 217.0 97.0 484.0 0.0 13.0 0.0 472.0 15.0 0
t 0 0 17.0 7.0 10.0 470.0 0.0 3.0 21.0 12.0 0
|
| MA1721.2_rc_shift0 (ZNF93_rc) |
 |
|
|
; oligos_6nt_mkv4_m3 versus MA1721.2_rc (ZNF93_rc); m=2/2; ncol2=14; w=-1; offset=-1; strand=R; shift=0; score=0.501314; CCGCTGCyGmy
; cor=; Ncor=
a 37.0 126.0 44.0 10.0 57.0 44.0 10.0 32.0 50.0 730.0 93.0
c 2145.0 1784.0 33.0 2328.0 576.0 42.0 2334.0 1263.0 22.0 1483.0 663.0
g 134.0 138.0 2292.0 20.0 96.0 2279.0 26.0 92.0 2278.0 114.0 177.0
t 72.0 340.0 19.0 30.0 1659.0 23.0 18.0 1001.0 38.0 61.0 1455.0
|