One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m35/peak-motifs_oligos_7nt_mkv5_m35.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_m35/peak-motifs_oligos_7nt_mkv5_m35_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m35_shift2 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m35_shift2 (oligos_7nt_mkv5_m35oligos_7nt_mkv5_m35) |
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; oligos_7nt_mkv5_m35 (oligos_7nt_mkv5_m35oligos_7nt_mkv5_m35); m=0 (reference); ncol1=12; shift=2; ncol=14; --vvCACAGGCAsv
; Alignment reference
a 0 0 540 532 9 2102 8 2026 1 22 20 1913 229 611
c 0 0 631 654 2046 1 2070 45 161 8 2042 48 767 599
g 0 0 638 562 12 14 1 43 1935 2074 28 151 630 615
t 0 0 308 369 50 0 38 3 20 13 27 5 491 292
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| MA0002.2_rc_shift0 (RUNX1_rc) |
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; oligos_7nt_mkv5_m35 versus MA0002.2_rc (RUNX1_rc); m=1/1; ncol2=11; w=9; offset=-2; strand=R; shift=0; score=0.471653; waaCCACAram---
; cor=; Ncor=
a 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 0
c 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 0
g 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 0
t 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0 0
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