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.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/dyads_m4/peak-motifs_dyads_m4.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.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/dyads_m4/peak-motifs_dyads_m4_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: dyads_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m4_shift0 (dyads_m4) |
 |
|
|
; dyads_m4; m=0 (reference); ncol1=13; shift=0; ncol=13; camACACACrCaC
; Alignment reference
a 692 1932 1963 3124 46 3190 60 3155 31 986 38 2067 370
c 1862 667 1096 52 3156 14 3160 33 3190 50 3147 251 2240
g 346 403 68 60 25 53 18 45 21 2134 51 608 304
t 369 267 142 33 42 12 31 36 27 99 33 343 355
|
| twi_shift2 (twi) |
 |
|
|
; dyads_m4 versus twi; m=1/1; ncol2=8; w=0; offset=2; strand=D; shift=2; score=0.479318; --mACAyaTG---
; cor=; Ncor=
a 0 0 10.6667 12.8 0 16 1.06667 10.6667 0 1.06667 0 0 0
c 0 0 5.33333 3.2 16 0 7.46667 3.2 3.2 0 0 0 0
g 0 0 0 0 0 0 1.06667 2.13333 1.06667 13.8667 0 0 0
t 0 0 0 0 0 0 6.4 0 11.7333 1.06667 0 0 0
|