One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_7nt_mkv5_m1/peak-motifs_oligos_7nt_mkv5_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/idmmpmm_PCM.tf -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/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_7nt_mkv5_m1/peak-motifs_oligos_7nt_mkv5_m1_vs_db_IDMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m1_shift3 (oligos_7nt_mkv5_m1) |
 |
|
|
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=3; ncol=14; ---maAACACAAmm
; Alignment reference
a 0 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640
c 0 0 0 544 437 1 22 1609 67 1586 57 20 518 599
g 0 0 0 384 449 28 54 61 58 114 51 39 350 326
t 0 0 0 329 421 49 57 114 35 99 92 54 457 315
|
| slp1_rc_shift0 (slp1_rc) |
 |
|
|
; oligos_7nt_mkv5_m1 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.539029; ATGTmAACAmacc-
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0
|