# One-to-n alignments

    Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep3_motifs50/results/discovered_motifs/oligos_8nt_mkv2_m26/peak-motifs_oligos_8nt_mkv2_m26.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_Rep3_motifs50/results/discovered_motifs/oligos_8nt_mkv2_m26/peak-motifs_oligos_8nt_mkv2_m26_vs_db_jaspar_core_nonredundant_vertebrates

## One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m26_shift2 ; 3 matrices ; sort_field=Ncor

Matrix name | Aligned logos | cor | Ncor | Aligned matrices
--- | --- | --- | --- | ---
oligos_8nt_mkv2_m26_shift2 (oligos_8nt_mkv2_m26oligos_8nt_mkv2_m26) |  |  |  |
    ; oligos_8nt_mkv2_m26 (oligos_8nt_mkv2_m26oligos_8nt_mkv2_m26); m=0 (reference); ncol1=12; shift=2; ncol=14; --CTACAGTGTGya
    ; Alignment reference
    a	0	0	6	14	87	12	82	1	0	1	0	8	5	56
    c	0	0	63	7	0	69	1	0	0	0	0	0	24	3
    g	0	0	10	1	0	1	0	85	0	86	0	79	18	9
    t	0	0	8	65	0	5	4	1	87	0	87	0	40	19
MA1580.1_shift1 (ZBTB32) |  |  |  |
    ; oligos_8nt_mkv2_m26 versus MA1580.1 (ZBTB32); m=1/2; ncol2=10; w=9; offset=-1; strand=D; shift=1; score=0.51084; -tGTACAGTaw---
    ; cor=; Ncor=
    a	0	882.0	356.0	5.0	3560.0	0.0	3556.0	0.0	0.0	2390.0	1559.0	0	0	0
    c	0	764.0	3.0	1.0	5.0	3560.0	3.0	3.0	4.0	109.0	213.0	0	0	0
    g	0	65.0	3057.0	3.0	0.0	1.0	4.0	3562.0	0.0	723.0	215.0	0	0	0
    t	0	1849.0	156.0	3563.0	0.0	0.0	8.0	6.0	3558.0	339.0	1574.0	0	0	0
MA1542.1_shift0 (OSR1) |  |  |  |
    ; oligos_8nt_mkv2_m26 versus MA1542.1 (OSR1); m=2/2; ncol2=10; w=8; offset=-2; strand=D; shift=0; score=0.420131; yGCTACyGTk----
    ; cor=; Ncor=
    a	1028.0	448.0	0.0	4.0	4890.0	10.0	0.0	62.0	407.0	1102.0	0	0	0	0
    c	1302.0	235.0	4890.0	99.0	83.0	4890.0	2103.0	4.0	612.0	545.0	0	0	0	0
    g	717.0	4890.0	0.0	0.0	38.0	0.0	5.0	4890.0	504.0	1512.0	0	0	0	0
    t	1843.0	17.0	18.0	4890.0	444.0	0.0	2787.0	24.0	4890.0	1731.0	0	0	0	0