One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_6nt_m22/peak-motifs_positions_6nt_m22.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/positions_6nt_m22/peak-motifs_positions_6nt_m22_vs_db_jaspar_core_nonredundant_vertebrates
One-to-n matrix alignment; reference matrix: positions_6nt_m22_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6nt_m22_shift0 (positions_6nt_m22positions_6nt_m22) |
 |
|
|
; positions_6nt_m22 (positions_6nt_m22positions_6nt_m22); m=0 (reference); ncol1=10; shift=0; ncol=11; srGAGAGAgr-
; Alignment reference
a 1085 2308 0 5736 0 5736 0 5736 1139 2107 0
c 1475 370 0 0 0 0 0 0 1162 1136 0
g 2278 1930 5736 0 5736 0 5735 0 2687 1714 0
t 898 1128 0 0 0 0 1 0 748 779 0
|
| MA0508.3_rc_shift0 (PRDM1_rc) |
 |
|
|
; positions_6nt_m22 versus MA0508.3_rc (PRDM1_rc); m=1/1; ncol2=11; w=10; offset=0; strand=R; shift=0; score=0.689244; raGAGAAAGwr
; cor=; Ncor=
a 19978.0 27294.0 660.0 49466.0 432.0 52619.0 50943.0 52905.0 829.0 17272.0 22293.0
c 7861.0 4098.0 290.0 1390.0 207.0 561.0 1011.0 826.0 701.0 8768.0 6638.0
g 17518.0 13567.0 52821.0 1076.0 53465.0 488.0 1346.0 467.0 52752.0 12288.0 17788.0
t 10124.0 10522.0 1710.0 3549.0 1377.0 1813.0 2181.0 1283.0 1199.0 17153.0 8762.0
|