One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m34/peak-motifs_dyads_m34.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.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 Myogenin_Rep3_motifs50/results/discovered_motifs/dyads_m34/peak-motifs_dyads_m34_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: dyads_m34_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m34_shift0 (dyads_m34dyads_m34) |
 |
|
|
; dyads_m34 (dyads_m34dyads_m34); m=0 (reference); ncol1=15; shift=0; ncol=15; ssACGcrsssCCGvs
; Alignment reference
a 1 4 15 0 0 3 8 2 2 2 3 0 0 6 2
c 6 7 3 21 1 11 4 7 7 7 15 19 0 6 8
g 10 7 2 0 20 5 7 9 11 9 3 2 21 7 8
t 4 3 1 0 0 2 2 3 1 3 0 0 0 2 3
|
| MA0259.1_rc_shift0 (ARNT::HIF1A_rc) |
 |
|
|
; dyads_m34 versus MA0259.1_rc (ARNT::HIF1A_rc); m=1/1; ncol2=8; w=8; offset=0; strand=R; shift=0; score=0.412867; gCACGTvb-------
; cor=; Ncor=
a 15.0 0.0 104.0 0.0 1.0 1.0 31.0 0.0 0 0 0 0 0 0 0
c 20.0 104.0 0.0 104.0 0.0 23.0 34.0 49.0 0 0 0 0 0 0 0
g 51.0 0.0 0.0 0.0 103.0 2.0 29.0 28.0 0 0 0 0 0 0 0
t 18.0 0.0 0.0 0.0 0.0 78.0 10.0 27.0 0 0 0 0 0 0 0
|