One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m13/peak-motifs_oligos_8nt_mkv6_m13.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_8nt_mkv6_m13/peak-motifs_oligos_8nt_mkv6_m13_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m13_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv6_m13_shift0 (oligos_8nt_mkv6_m13oligos_8nt_mkv6_m13) |
 |
|
|
; oligos_8nt_mkv6_m13 (oligos_8nt_mkv6_m13oligos_8nt_mkv6_m13); m=0 (reference); ncol1=12; shift=0; ncol=16; ssCGGGCGGCss----
; Alignment reference
a 620 520 41 30 190 119 73 33 109 170 477 615 0 0 0 0
c 2195 1663 5026 402 777 365 5142 461 303 4541 1560 1677 0 0 0 0
g 1806 2574 228 4866 4220 4734 77 4792 4797 508 2764 2377 0 0 0 0
t 705 569 31 28 139 108 34 40 117 107 525 657 0 0 0 0
|
| MA1513.1_rc_shift1 (KLF15_rc) |
 |
|
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; oligos_8nt_mkv6_m13 versus MA1513.1_rc (KLF15_rc); m=1/2; ncol2=11; w=11; offset=1; strand=R; shift=1; score=0.68595; -sgGGGCGGGgs----
; cor=; Ncor=
a 0 2165.0 1602.0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 1809.0 1744.0 0 0 0 0
c 0 3124.0 1934.0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 2117.0 5538.0 0 0 0 0
g 0 5013.0 6267.0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 6506.0 2903.0 0 0 0 0
t 0 1067.0 1566.0 12.0 55.0 11.0 0.0 0.0 93.0 40.0 937.0 1184.0 0 0 0 0
|
| MA1596.1_rc_shift0 (ZNF460_rc) |
 |
|
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; oligos_8nt_mkv6_m13 versus MA1596.1_rc (ZNF460_rc); m=2/2; ncol2=16; w=12; offset=0; strand=R; shift=0; score=0.529234; CyyGGGAGGCkGAGGy
; cor=; Ncor=
a 64.0 29.0 56.0 40.0 9.0 10.0 1570.0 6.0 11.0 35.0 85.0 29.0 1284.0 66.0 114.0 46.0
c 1147.0 421.0 930.0 27.0 15.0 15.0 17.0 9.0 7.0 1493.0 181.0 47.0 83.0 67.0 185.0 1023.0
g 158.0 175.0 110.0 1533.0 1583.0 1584.0 12.0 1596.0 1588.0 23.0 495.0 1519.0 218.0 1460.0 1264.0 131.0
t 243.0 987.0 516.0 12.0 5.0 3.0 13.0 1.0 6.0 61.0 851.0 17.0 27.0 19.0 49.0 412.0
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