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.2026-01-25.201729_2026-01-25.201729_P12xBT/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3.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.2026-01-25.201729_2026-01-25.201729_P12xBT/results/discovered_motifs/oligos_6nt_mkv3_m3/peak-motifs_oligos_6nt_mkv3_m3_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m3_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m3_shift1 (oligos_6nt_mkv3_m3) |
 |
|
|
; oligos_6nt_mkv3_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -gaGAGCGAGag
; Alignment reference
a 0 90 185 8 405 23 99 8 424 37 204 80
c 0 90 102 9 10 6 320 15 6 20 107 74
g 0 232 99 437 20 422 21 434 18 391 76 241
t 0 50 76 8 27 11 22 5 14 14 75 67
|
| Trl_rc_shift0 (Trl_rc) |
 |
|
|
; oligos_6nt_mkv3_m3 versus Trl_rc; m=1/2; ncol2=13; w=-1; offset=-1; strand=R; shift=0; score=0.641769; agaGaGAGmrma
; cor=; Ncor=
a 42 17 46 7 50 11 62 0 40 26 30 41
c 14 9 6 1 9 8 11 5 27 10 24 13
g 3 47 16 56 12 56 0 72 3 41 19 8
t 18 4 9 13 6 2 4 0 7 0 4 15
|
| z_shift2 (z) |
 |
|
|
; oligos_6nt_mkv3_m3 versus z; m=2/2; ncol2=6; w=0; offset=1; strand=D; shift=2; score=0.447867; --TGAGtG----
; cor=; Ncor=
a 0 0 2.04878 0 42 0 7.17073 1.02439 0 0 0 0
c 0 0 7.17073 0 0 0 10.2439 5.12195 0 0 0 0
g 0 0 3.07317 42 0 42 0 30.7317 0 0 0 0
t 0 0 29.7073 0 0 0 24.5854 5.12195 0 0 0 0
|