One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m11/peak-motifs_oligos_6nt_mkv3_m11.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_6nt_mkv3_m11/peak-motifs_oligos_6nt_mkv3_m11_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m11_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m11_shift1 (oligos_6nt_mkv3_m11oligos_6nt_mkv3_m11) |
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; oligos_6nt_mkv3_m11 (oligos_6nt_mkv3_m11oligos_6nt_mkv3_m11); m=0 (reference); ncol1=11; shift=1; ncol=12; -sdGCCAGGCms
; Alignment reference
a 0 96 117 3 0 0 427 0 0 0 128 76
c 0 152 66 4 461 452 17 1 0 461 149 126
g 0 133 156 453 0 9 17 460 461 0 73 177
t 0 80 122 1 0 0 0 0 0 0 111 82
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| MA0671.1_shift0 (NFIX) |
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; oligos_6nt_mkv3_m11 versus MA0671.1 (NFIX); m=1/1; ncol2=9; w=8; offset=-1; strand=D; shift=0; score=0.502056; sgtGCCArv---
; cor=; Ncor=
a 7951.0 7832.0 11279.0 132.0 3.0 0.0 32864.0 32864.0 8251.0 0 0 0
c 8810.0 6134.0 9695.0 186.0 32864.0 32864.0 2230.0 1356.0 9039.0 0 0 0
g 8725.0 10855.0 5911.0 32864.0 3257.0 0.0 180.0 12688.0 9135.0 0 0 0
t 7378.0 8043.0 32864.0 2539.0 29.0 0.0 110.0 2399.0 6439.0 0 0 0
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