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/positions_6-8nt_m5/peak-motifs_positions_6-8nt_m5.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/positions_6-8nt_m5/peak-motifs_positions_6-8nt_m5_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: positions_6-8nt_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6-8nt_m5_shift0 (positions_6-8nt_m5) |
 |
|
|
; positions_6-8nt_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; acACACACac
; Alignment reference
a 3234 818 5808 0 5705 0 5739 0 3405 906
c 764 3452 0 5651 34 5616 19 5751 585 3242
g 1164 365 0 1 0 5 0 10 898 737
t 646 1173 0 156 69 187 50 47 920 923
|
| twi_shift3 (twi) |
 |
|
|
; positions_6-8nt_m5 versus twi; m=1/1; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.462983; ---mACAyaT
; cor=; Ncor=
a 0 0 0 10.6667 12.8 0 16 1.06667 10.6667 0
c 0 0 0 5.33333 3.2 16 0 7.46667 3.2 3.2
g 0 0 0 0 0 0 0 1.06667 2.13333 1.06667
t 0 0 0 0 0 0 0 6.4 0 11.7333
|