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_m7/peak-motifs_oligos_7nt_mkv5_m7.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/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_7nt_mkv5_m7/peak-motifs_oligos_7nt_mkv5_m7_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m7_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m7_shift0 (oligos_7nt_mkv5_m7) |
 |
|
|
; oligos_7nt_mkv5_m7; m=0 (reference); ncol1=14; shift=0; ncol=14; ctCTCTyTCTCTCt
; Alignment reference
a 503 585 161 215 120 150 166 109 121 141 154 241 435 595
c 4268 736 5741 282 5809 301 4049 266 5870 243 5779 444 4387 960
g 471 820 143 252 136 244 156 293 76 286 147 332 524 719
t 1206 4307 403 5699 383 5753 2077 5780 381 5778 368 5431 1102 4174
|
| Trl_shift1 (Trl) |
 |
|
|
; oligos_7nt_mkv5_m7 versus Trl; m=1/1; ncol2=13; w=0; offset=1; strand=D; shift=1; score=0.726651; -TtkykCTCtCtct
; cor=; Ncor=
a 0 10 15 4 0 7 0 4 2 6 13 9 4 18
c 0 10 8 19 41 3 72 0 56 12 56 16 47 3
g 0 0 13 24 10 27 5 11 8 9 1 6 9 14
t 0 57 41 30 26 40 0 62 11 50 7 46 17 42
|