One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/oligos_8nt_mkv2_m18/peak-motifs_oligos_8nt_mkv2_m18.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/oligos_8nt_mkv2_m18/peak-motifs_oligos_8nt_mkv2_m18_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m18_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m18_shift0 (oligos_8nt_mkv2_m18oligos_8nt_mkv2_m18) |
 |
|
|
; oligos_8nt_mkv2_m18 (oligos_8nt_mkv2_m18oligos_8nt_mkv2_m18); m=0 (reference); ncol1=12; shift=0; ncol=14; rsATTTsTAAAw--
; Alignment reference
a 16 3 28 0 1 0 0 0 28 23 24 7 0 0
c 0 17 0 0 0 0 15 0 0 0 2 1 0 0
g 10 7 0 0 0 0 12 0 0 5 1 2 0 0
t 2 1 0 28 27 28 1 28 0 0 1 18 0 0
|
| MA0845.1_shift3 (FOXB1) |
 |
|
|
; oligos_8nt_mkv2_m18 versus MA0845.1 (FOXB1); m=1/1; ncol2=11; w=9; offset=3; strand=D; shift=3; score=0.460072; ---wAwGTMAAyAt
; cor=; Ncor=
a 0 0 0 2393.0 5343.0 1983.0 1159.0 180.0 4891.0 6841.0 6841.0 28.0 6841.0 1704.0
c 0 0 0 272.0 263.0 218.0 54.0 240.0 1950.0 213.0 47.0 2252.0 0.0 573.0
g 0 0 0 190.0 1498.0 409.0 6841.0 113.0 75.0 0.0 47.0 104.0 157.0 556.0
t 0 0 0 4448.0 561.0 4858.0 124.0 6841.0 73.0 381.0 216.0 4589.0 147.0 4008.0
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