One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m22/peak-motifs_oligos_7nt_mkv5_m22.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_7nt_mkv5_m22/peak-motifs_oligos_7nt_mkv5_m22_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m22_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m22_shift1 (oligos_7nt_mkv5_m22oligos_7nt_mkv5_m22) |
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; oligos_7nt_mkv5_m22 (oligos_7nt_mkv5_m22oligos_7nt_mkv5_m22); m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGGGAGCss
; Alignment reference
a 0 294 232 0 0 0 0 2067 21 9 394 337
c 0 865 704 2200 1 74 0 133 44 2184 731 596
g 0 687 1013 0 2199 2126 2168 0 2114 0 727 1015
t 0 354 251 0 0 0 32 0 21 7 348 252
|
| MA1122.1_shift0 (TFDP1) |
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; oligos_7nt_mkv5_m22 versus MA1122.1 (TFDP1); m=1/1; ncol2=11; w=10; offset=-1; strand=D; shift=0; score=0.620486; gsGCGGGAAss-
; cor=; Ncor=
a 411.0 263.0 48.0 28.0 14.0 36.0 27.0 1855.0 1645.0 465.0 381.0 0
c 491.0 684.0 71.0 1886.0 54.0 80.0 32.0 24.0 170.0 647.0 604.0 0
g 777.0 940.0 1862.0 22.0 1932.0 1865.0 1919.0 98.0 137.0 648.0 648.0 0
t 328.0 120.0 26.0 71.0 7.0 26.0 29.0 30.0 55.0 247.0 374.0 0
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