One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m30/peak-motifs_oligos_8nt_mkv6_m30.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_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m30/peak-motifs_oligos_8nt_mkv6_m30_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m30_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv6_m30_shift1 (oligos_8nt_mkv6_m30oligos_8nt_mkv6_m30) |
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; oligos_8nt_mkv6_m30 (oligos_8nt_mkv6_m30oligos_8nt_mkv6_m30); m=0 (reference); ncol1=12; shift=1; ncol=13; -ssCGAGCCCGss
; Alignment reference
a 0 468 314 16 10 2403 78 95 70 3 22 416 527
c 0 1408 1429 3167 18 657 184 2939 2864 3185 144 1326 1160
g 0 1070 1337 218 3354 260 3076 284 387 221 3229 1313 1360
t 0 467 333 12 31 93 75 95 92 4 18 358 366
|
| MA0632.2_shift0 (TCFL5) |
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; oligos_8nt_mkv6_m30 versus MA0632.2 (TCFL5); m=1/1; ncol2=10; w=9; offset=-1; strand=D; shift=0; score=0.48612; kCrCGCGCmc---
; cor=; Ncor=
a 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 72543.0 10588.0 0 0 0
c 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 44394.0 47538.0 0 0 0
g 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 19096.0 5747.0 0 0 0
t 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 25921.0 8670.0 0 0 0
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