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.2026-01-25.180905_2026-01-25.180905_kvVFaU/results/discovered_motifs/oligos_6-8nt_m8/peak-motifs_oligos_6-8nt_m8.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.2026-01-25.180905_2026-01-25.180905_kvVFaU/results/discovered_motifs/oligos_6-8nt_m8/peak-motifs_oligos_6-8nt_m8_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m8_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m8_shift0 (oligos_6-8nt_m8) |
 |
|
|
; oligos_6-8nt_m8; m=0 (reference); ncol1=14; shift=0; ncol=14; agAGAGAGmGAGag
; Alignment reference
a 994 451 1769 160 1792 102 1845 112 705 108 1804 142 986 408
c 454 356 160 92 213 70 140 46 1215 80 176 86 498 337
g 461 1198 165 1923 83 1997 89 1996 156 1989 146 1907 385 1205
t 308 212 123 42 129 48 143 63 141 40 91 82 348 267
|
| Trl_rc_shift0 (Trl_rc) |
 |
|
|
; oligos_6-8nt_m8 versus Trl_rc; m=1/1; ncol2=13; w=0; offset=0; strand=R; shift=0; score=0.732476; agaGaGAGmrmaA-
; cor=; Ncor=
a 42 17 46 7 50 11 62 0 40 26 30 41 57 0
c 14 9 6 1 9 8 11 5 27 10 24 13 0 0
g 3 47 16 56 12 56 0 72 3 41 19 8 10 0
t 18 4 9 13 6 2 4 0 7 0 4 15 10 0
|