One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_6nt_mkv4_m18/peak-motifs_oligos_6nt_mkv4_m18.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_6nt_mkv4_m18/peak-motifs_oligos_6nt_mkv4_m18_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m18_shift1 ; 3 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
oligos_6nt_mkv4_m18_shift1 (oligos_6nt_mkv4_m18oligos_6nt_mkv4_m18)     
; oligos_6nt_mkv4_m18 (oligos_6nt_mkv4_m18oligos_6nt_mkv4_m18); m=0 (reference); ncol1=11; shift=1; ncol=12; -sdGCCAGGChs
; Alignment reference
a	0	1092	1363	1	0	0	4729	0	0	0	1301	804
c	0	1510	596	0	4729	4728	0	11	0	4729	1527	1280
g	0	1375	1490	4726	0	1	0	4718	4729	0	634	1724
t	0	752	1280	2	0	0	0	0	0	0	1267	921
MA0092.1_rc_shift1 (Hand1::Tcf3_rc) 
; oligos_6nt_mkv4_m18 versus MA0092.1_rc (Hand1::Tcf3_rc); m=1/2; ncol2=10; w=10; offset=0; strand=R; shift=1; score=0.643465; -awkCCAGAys-
; cor=; Ncor=
a	0	16.0	10.0	5.0	1.0	0.0	29.0	1.0	24.0	4.0	7.0	0
c	0	4.0	3.0	1.0	25.0	29.0	0.0	0.0	1.0	15.0	10.0	0
g	0	4.0	0.0	14.0	3.0	0.0	0.0	28.0	2.0	0.0	8.0	0
t	0	5.0	16.0	9.0	0.0	0.0	0.0	0.0	2.0	10.0	4.0	0
MA0671.1_shift0 (NFIX) 
; oligos_6nt_mkv4_m18 versus MA0671.1 (NFIX); m=2/2; ncol2=9; w=8; offset=-1; strand=D; shift=0; score=0.509472; sgtGCCArv---
; cor=; Ncor=
a	7951.0	7832.0	11279.0	132.0	3.0	0.0	32864.0	32864.0	8251.0	0	0	0
c	8810.0	6134.0	9695.0	186.0	32864.0	32864.0	2230.0	1356.0	9039.0	0	0	0
g	8725.0	10855.0	5911.0	32864.0	3257.0	0.0	180.0	12688.0	9135.0	0	0	0
t	7378.0	8043.0	32864.0	2539.0	29.0	0.0	110.0	2399.0	6439.0	0	0	0