One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_6nt_mkv4_m46/peak-motifs_oligos_6nt_mkv4_m46.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_6nt_mkv4_m46/peak-motifs_oligos_6nt_mkv4_m46_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m46_shift3 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m46_shift3 (oligos_6nt_mkv4_m46oligos_6nt_mkv4_m46) |
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; oligos_6nt_mkv4_m46 (oligos_6nt_mkv4_m46oligos_6nt_mkv4_m46); m=0 (reference); ncol1=10; shift=3; ncol=13; ---ssTGCGCAss
; Alignment reference
a 0 0 0 500 495 0 5 0 0 0 3098 342 532
c 0 0 0 1181 1350 0 0 3098 0 3093 0 911 885
g 0 0 0 885 911 0 3093 0 3098 0 0 1350 1181
t 0 0 0 532 342 3098 0 0 0 5 0 495 500
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| MA1650.1_shift2 (ZBTB14) |
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; oligos_6nt_mkv4_m46 versus MA1650.1 (ZBTB14); m=1/2; ncol2=12; w=10; offset=-1; strand=D; shift=2; score=0.609725; --ssCCGCGCACs
; cor=; Ncor=
a 0 0 570.0 501.0 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 970.0
c 0 0 1779.0 1972.0 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 1618.0
g 0 0 1668.0 1555.0 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 1451.0
t 0 0 530.0 519.0 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 508.0
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| MA0506.1_shift0 (NRF1) |
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; oligos_6nt_mkv4_m46 versus MA0506.1 (NRF1); m=2/2; ncol2=11; w=8; offset=-3; strand=D; shift=0; score=0.555634; GCGCmTGCGCr--
; cor=; Ncor=
a 602.0 623.0 196.0 0.0 1514.0 0.0 0.0 0.0 0.0 74.0 2245.0 0 0
c 375.0 4001.0 189.0 4016.0 1862.0 403.0 0.0 4338.0 349.0 4550.0 804.0 0 0
g 3647.0 0.0 4239.0 468.0 935.0 528.0 4624.0 0.0 4275.0 0.0 1575.0 0 0
t 0.0 0.0 0.0 140.0 313.0 3693.0 0.0 286.0 0.0 0.0 0.0 0 0
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