One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.184326_2026-01-25.184326_ptOhrJ/results/discovered_motifs/oligos_6-8nt_m9/peak-motifs_oligos_6-8nt_m9.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/dmmpmm_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/2026/01/25/peak-motifs.2026-01-25.184326_2026-01-25.184326_ptOhrJ/results/discovered_motifs/oligos_6-8nt_m9/peak-motifs_oligos_6-8nt_m9_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m9_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m9_shift1 (oligos_6-8nt_m9) |
 |
|
|
; oligos_6-8nt_m9; m=0 (reference); ncol1=14; shift=1; ncol=15; -awAAACAACAAAma
; Alignment reference
a 0 150 129 275 318 329 26 327 321 38 323 323 275 130 125
c 0 58 64 53 18 16 286 15 14 282 14 19 37 93 66
g 0 84 70 25 14 9 20 12 17 13 19 16 19 65 88
t 0 79 108 18 21 17 39 17 19 38 15 13 40 83 92
|
| hb_shift0 (hb) |
 |
|
|
; oligos_6-8nt_m9 versus hb; m=1/1; ncol2=9; w=-1; offset=-1; strand=D; shift=0; score=0.400658; mayAAAAAa------
; cor=; Ncor=
a 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0 0 0 0 0
c 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0 0 0 0 0
g 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0 0 0 0 0
t 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0 0 0 0 0
|