One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m27/peak-motifs_oligos_7nt_mkv4_m27.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_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m27/peak-motifs_oligos_7nt_mkv4_m27_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m27_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m27_shift0 (oligos_7nt_mkv4_m27oligos_7nt_mkv4_m27) |
 |
|
|
; oligos_7nt_mkv4_m27 (oligos_7nt_mkv4_m27oligos_7nt_mkv4_m27); m=0 (reference); ncol1=11; shift=0; ncol=14; ssCGGCCCGss---
; Alignment reference
a 31 34 1 0 6 7 6 0 0 39 29 0 0 0
c 165 94 309 39 23 279 227 295 7 143 110 0 0 0
g 81 149 5 276 267 22 71 20 308 98 142 0 0 0
t 38 38 0 0 19 7 11 0 0 35 34 0 0 0
|
| MA1513.1_shift3 (KLF15) |
 |
|
|
; oligos_7nt_mkv4_m27 versus MA1513.1 (KLF15); m=1/1; ncol2=11; w=8; offset=3; strand=D; shift=3; score=0.431025; ---scCCCGCCCcs
; cor=; Ncor=
a 0 0 0 1184.0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 1566.0 1067.0
c 0 0 0 2903.0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 6267.0 5013.0
g 0 0 0 5538.0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 1934.0 3124.0
t 0 0 0 1744.0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 1602.0 2165.0
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