One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/04/28/peak-motifs.2025-04-28.044641_2025-04-28.044641_ntYsd5/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/2025/04/28/peak-motifs.2025-04-28.044641_2025-04-28.044641_ntYsd5/results/discovered_motifs/dyads_m4/peak-motifs_dyads_m4_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: dyads_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m4_shift0 (dyads_m4) |
 |
|
|
; dyads_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; wdwAAAATAtwd
; Alignment reference
a 27 21 23 63 66 63 67 0 66 16 21 17
c 15 12 11 1 0 0 0 0 0 12 15 7
g 2 17 6 2 0 0 0 1 1 5 13 20
t 23 17 27 1 1 4 0 66 0 34 18 23
|
| hb_shift0 (hb) |
 |
|
|
; dyads_m4 versus hb; m=1/2; ncol2=9; w=0; offset=0; strand=D; shift=0; score=0.526125; mayAAAAAa---
; cor=; Ncor=
a 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0 0
c 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0 0
g 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0 0
t 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0 0
|
| br-Z3_rc_shift3 (br-Z3_rc) |
 |
|
|
; dyads_m4 versus br-Z3_rc; m=2/2; ncol2=11; w=0; offset=3; strand=R; shift=3; score=0.459766; ---AwAMTAdWd
; cor=; Ncor=
a 0 0 0 14 8 13 4 1 13 5 4 5
c 0 0 0 0 0 1 11 1 1 0 0 0
g 0 0 0 1 0 2 0 1 0 6 0 4
t 0 0 0 1 8 0 1 13 2 5 12 7
|