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.2026-01-25.181029_2026-01-25.181029_PUJ88V/results/discovered_motifs/dyads_m9/peak-motifs_dyads_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.2026-01-25.181029_2026-01-25.181029_PUJ88V/results/discovered_motifs/dyads_m9/peak-motifs_dyads_m9_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: dyads_m9_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m9_shift0 (dyads_m9) |
 |
|
|
; dyads_m9; m=0 (reference); ncol1=17; shift=0; ncol=17; agrGAGAGAGAGAGrga
; Alignment reference
a 1657 610 1459 259 2892 258 2908 225 2732 196 2915 150 2821 221 1338 635 1635
c 567 464 338 225 234 97 234 90 266 91 205 86 241 119 426 447 622
g 702 1976 1356 2812 153 2993 149 3025 284 3045 182 3108 200 2952 1465 1993 798
t 494 370 267 124 141 72 129 80 138 88 118 76 158 128 191 345 365
|
| Trl_rc_shift4 (Trl_rc) |
 |
|
|
; dyads_m9 versus Trl_rc; m=1/1; ncol2=13; w=0; offset=4; strand=R; shift=4; score=0.661031; ----agaGaGAGmrmaA
; cor=; Ncor=
a 0 0 0 0 42 17 46 7 50 11 62 0 40 26 30 41 57
c 0 0 0 0 14 9 6 1 9 8 11 5 27 10 24 13 0
g 0 0 0 0 3 47 16 56 12 56 0 72 3 41 19 8 10
t 0 0 0 0 18 4 9 13 6 2 4 0 7 0 4 15 10
|