One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m35/peak-motifs_oligos_7nt_mkv4_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_Rep2_motifs50/results/discovered_motifs/oligos_7nt_mkv4_m35/peak-motifs_oligos_7nt_mkv4_m35_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m35_shift1 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m35_shift1 (oligos_7nt_mkv4_m35oligos_7nt_mkv4_m35) |
 |
|
|
; oligos_7nt_mkv4_m35 (oligos_7nt_mkv4_m35oligos_7nt_mkv4_m35); m=0 (reference); ncol1=11; shift=1; ncol=14; -scAGCCCAGsm--
; Alignment reference
a 0 92 65 385 0 0 0 0 383 0 69 97 0 0
c 0 122 197 0 0 385 384 381 1 2 178 134 0 0
g 0 107 93 0 385 0 1 4 1 383 104 63 0 0
t 0 64 30 0 0 0 0 0 0 0 34 91 0 0
|
| MA1656.1_shift0 (ZNF449) |
 |
|
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; oligos_7nt_mkv4_m35 versus MA1656.1 (ZNF449); m=1/1; ncol2=14; w=11; offset=-1; strand=D; shift=0; score=0.617122; cvaAGCCCAACcas
; cor=; Ncor=
a 1809.0 2104.0 4135.0 6239.0 108.0 139.0 64.0 68.0 6851.0 6620.0 184.0 1143.0 2595.0 1670.0
c 2716.0 2320.0 1759.0 582.0 92.0 7088.0 7540.0 7479.0 300.0 96.0 7244.0 5029.0 1875.0 2195.0
g 1566.0 1921.0 1463.0 224.0 7368.0 322.0 28.0 54.0 182.0 829.0 167.0 473.0 1585.0 2237.0
t 1569.0 1315.0 303.0 615.0 92.0 111.0 28.0 59.0 327.0 115.0 65.0 1015.0 1605.0 1558.0
|