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.2026-01-25.180830_2026-01-25.180830_qbHDLg/results/discovered_motifs/positions_6-8nt_m4/peak-motifs_positions_6-8nt_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/2026/01/25/peak-motifs.2026-01-25.180830_2026-01-25.180830_qbHDLg/results/discovered_motifs/positions_6-8nt_m4/peak-motifs_positions_6-8nt_m4_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: positions_6-8nt_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6-8nt_m4_shift0 (positions_6-8nt_m4) |
 |
|
|
; positions_6-8nt_m4; m=0 (reference); ncol1=14; shift=0; ncol=14; yaTACATATGTAtr
; Alignment reference
a 996 1897 264 3886 456 3858 281 3905 190 822 186 3770 919 1731
c 1142 659 321 142 3081 98 195 129 368 155 304 159 1040 645
g 646 1040 159 304 155 368 129 195 98 3081 142 321 659 1142
t 1730 918 3770 182 822 190 3909 285 3858 456 3882 264 1896 996
|
| twi_rc_shift4 (twi_rc) |
 |
|
|
; positions_6-8nt_m4 versus twi_rc; m=1/1; ncol2=8; w=0; offset=4; strand=R; shift=4; score=0.413866; ----CAtrTGTk--
; cor=; Ncor=
a 0 0 0 0 1.06667 11.7333 0 6.4 0 0 0 0 0 0
c 0 0 0 0 13.8667 1.06667 2.13333 1.06667 0 0 0 0 0 0
g 0 0 0 0 0 3.2 3.2 7.46667 0 16 3.2 5.33333 0 0
t 0 0 0 0 1.06667 0 10.6667 1.06667 16 0 12.8 10.6667 0 0
|