One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m17/peak-motifs_oligos_7nt_mkv5_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_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m17/peak-motifs_oligos_7nt_mkv5_m17_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m17_shift2 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m17_shift2 (oligos_7nt_mkv5_m17oligos_7nt_mkv5_m17) |
 |
|
|
; oligos_7nt_mkv5_m17 (oligos_7nt_mkv5_m17oligos_7nt_mkv5_m17); m=0 (reference); ncol1=11; shift=2; ncol=14; --srGAGCTGAss-
; Alignment reference
a 0 0 410 628 0 2013 5 6 0 4 2041 323 464 0
c 0 0 718 243 0 28 0 2033 17 0 0 584 567 0
g 0 0 552 712 2038 0 2028 1 27 2034 0 881 661 0
t 0 0 361 458 3 0 8 1 1997 3 0 253 349 0
|
| MA1652.1_shift0 (ZKSCAN5) |
 |
|
|
; oligos_7nt_mkv5_m17 versus MA1652.1 (ZKSCAN5); m=1/1; ncol2=14; w=11; offset=-2; strand=D; shift=0; score=0.56236; rgaGGArGTGAgrr
; cor=; Ncor=
a 870.0 822.0 1510.0 136.0 38.0 3199.0 1446.0 92.0 73.0 43.0 3199.0 375.0 1268.0 1169.0
c 636.0 704.0 315.0 30.0 27.0 62.0 27.0 37.0 86.0 24.0 41.0 370.0 504.0 569.0
g 1161.0 1197.0 801.0 3111.0 3236.0 47.0 1827.0 3149.0 76.0 3251.0 62.0 2034.0 1078.0 1052.0
t 660.0 604.0 701.0 50.0 26.0 19.0 27.0 49.0 3092.0 9.0 25.0 548.0 477.0 537.0
|