One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/results/discovered_motifs/oligos_7nt_test_vs_ctrl_m1/peak-motifs_oligos_7nt_test_vs_ctrl_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/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/results/discovered_motifs/oligos_7nt_test_vs_ctrl_m1/peak-motifs_oligos_7nt_test_vs_ctrl_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; wtTTAAGAAGww
; Alignment reference
a 1730 1487 221 298 5169 5716 548 5640 5714 557 1905 2146
c 1214 1224 232 256 421 38 196 188 47 192 1270 1166
g 1196 1148 222 347 307 190 5258 172 187 5147 1373 1237
t 2030 2311 5495 5269 273 226 168 170 222 274 1622 1621
|
| MA0601.2_rc_shift1 (Arid3b_rc) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m1 versus MA0601.2_rc (Arid3b_rc); m=1/1; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.432418; -ATTAAtw----
; cor=; Ncor=
a 0 911.0 89.0 0.0 1000.0 895.0 238.0 566.0 0 0 0 0
c 0 0.0 0.0 0.0 0.0 0.0 34.0 80.0 0 0 0 0
g 0 0.0 0.0 0.0 0.0 0.0 119.0 80.0 0 0 0 0
t 0 89.0 911.0 1000.0 0.0 104.0 609.0 273.0 0 0 0 0
|