One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m17/peak-motifs_oligos_6nt_mkv3_m17.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_m17/peak-motifs_oligos_6nt_mkv3_m17_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m17_shift4 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m17_shift4 (oligos_6nt_mkv3_m17oligos_6nt_mkv3_m17) |
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; oligos_6nt_mkv3_m17 (oligos_6nt_mkv3_m17oligos_6nt_mkv3_m17); m=0 (reference); ncol1=11; shift=4; ncol=15; ----ssGCGGCGsss
; Alignment reference
a 0 0 0 0 77 59 9 7 0 14 10 3 32 44 80
c 0 0 0 0 288 298 35 628 69 60 617 21 430 258 193
g 0 0 0 0 224 263 602 15 586 567 22 617 168 293 314
t 0 0 0 0 66 35 9 5 0 14 6 14 25 60 68
|
| MA0748.2_shift1 (YY2) |
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; oligos_6nt_mkv3_m17 versus MA0748.2 (YY2); m=1/2; ncol2=11; w=8; offset=-3; strand=D; shift=1; score=0.411389; -msATGGCGGcs---
; cor=; Ncor=
a 0 1973.0 1280.0 5263.0 58.0 48.0 126.0 109.0 64.0 411.0 961.0 939.0 0 0 0
c 0 1591.0 1607.0 46.0 273.0 120.0 101.0 5384.0 330.0 516.0 2876.0 1535.0 0 0 0
g 0 1068.0 2143.0 359.0 125.0 5509.0 5376.0 25.0 5231.0 4474.0 920.0 2373.0 0 0 0
t 0 1072.0 674.0 36.0 5248.0 27.0 101.0 186.0 79.0 303.0 947.0 857.0 0 0 0
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| MA1650.1_rc_shift0 (ZBTB14_rc) |
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; oligos_6nt_mkv3_m17 versus MA1650.1_rc (ZBTB14_rc); m=2/2; ncol2=12; w=8; offset=-4; strand=R; shift=0; score=0.401034; ssGTGCGCGGss---
; cor=; Ncor=
a 606.0 508.0 123.0 0.0 52.0 67.0 82.0 62.0 59.0 73.0 519.0 530.0 0 0 0
c 1239.0 1451.0 651.0 10.0 261.0 4043.0 319.0 4098.0 155.0 614.0 1555.0 1668.0 0 0 0
g 2260.0 1618.0 3674.0 37.0 4178.0 305.0 4078.0 294.0 4292.0 3525.0 1972.0 1779.0 0 0 0
t 442.0 970.0 99.0 4500.0 56.0 132.0 68.0 93.0 41.0 335.0 501.0 570.0 0 0 0
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