One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m38/peak-motifs_oligos_8nt_mkv6_m38.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_8nt_mkv6_m38/peak-motifs_oligos_8nt_mkv6_m38_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m38_shift2 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv6_m38_shift2 (oligos_8nt_mkv6_m38oligos_8nt_mkv6_m38)
; oligos_8nt_mkv6_m38 (oligos_8nt_mkv6_m38oligos_8nt_mkv6_m38); m=0 (reference); ncol1=12; shift=2; ncol=14; --rmCCACACAGss ; Alignment reference a 0 0 556 536 31 7 1994 7 1992 9 1844 20 444 416 c 0 0 492 585 1972 1935 4 1973 3 1942 76 81 692 569 g 0 0 571 488 14 48 30 4 32 2 107 1859 542 549 t 0 0 409 419 11 38 0 44 1 75 1 68 350 494

MA0002.2_rc_shift1 (RUNX1_rc)
; oligos_8nt_mkv6_m38 versus MA0002.2_rc (RUNX1_rc); m=1/3; ncol2=11; w=10; offset=-1; strand=R; shift=1; score=0.558637; -waaCCACAram-- ; cor=; Ncor= a 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 g 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0

MA0130.1_shift2 (ZNF354C)
; oligos_8nt_mkv6_m38 versus MA0130.1 (ZNF354C); m=2/3; ncol2=6; w=6; offset=0; strand=D; shift=2; score=0.466407; --mTCCAC------ ; cor=; Ncor= a 0 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 0 c 0 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 0 g 0 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 t 0 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0

MA1601.1_rc_shift0 (ZNF75D_rc)
; oligos_8nt_mkv6_m38 versus MA1601.1_rc (ZNF75D_rc); m=3/3; ncol2=10; w=8; offset=-2; strand=R; shift=0; score=0.412131; TyTCCCACay---- ; cor=; Ncor= a 512.0 396.0 18.0 28.0 124.0 5.0 6686.0 0.0 3519.0 1225.0 0 0 0 0 c 746.0 1693.0 15.0 6678.0 6545.0 6710.0 4.0 6757.0 1468.0 1850.0 0 0 0 0 g 256.0 576.0 20.0 29.0 44.0 18.0 59.0 0.0 715.0 1573.0 0 0 0 0 t 5245.0 4094.0 6706.0 24.0 46.0 26.0 10.0 2.0 1057.0 2111.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv6_m38_shift2 (oligos_8nt_mkv6_m38oligos_8nt_mkv6_m38)				; oligos_8nt_mkv6_m38 (oligos_8nt_mkv6_m38oligos_8nt_mkv6_m38); m=0 (reference); ncol1=12; shift=2; ncol=14; --rmCCACACAGss ; Alignment reference a 0 0 556 536 31 7 1994 7 1992 9 1844 20 444 416 c 0 0 492 585 1972 1935 4 1973 3 1942 76 81 692 569 g 0 0 571 488 14 48 30 4 32 2 107 1859 542 549 t 0 0 409 419 11 38 0 44 1 75 1 68 350 494
MA0002.2_rc_shift1 (RUNX1_rc)				; oligos_8nt_mkv6_m38 versus MA0002.2_rc (RUNX1_rc); m=1/3; ncol2=11; w=10; offset=-1; strand=R; shift=1; score=0.558637; -waaCCACAram-- ; cor=; Ncor= a 0 1053.0 1325.0 1339.0 93.0 13.0 1716.0 53.0 1936.0 656.0 814.0 521.0 0 0 c 0 289.0 81.0 251.0 1848.0 1987.0 70.0 1872.0 7.0 149.0 467.0 696.0 0 0 g 0 158.0 463.0 400.0 42.0 0.0 127.0 75.0 0.0 1072.0 485.0 496.0 0 0 t 0 500.0 131.0 10.0 17.0 0.0 87.0 0.0 57.0 123.0 234.0 287.0 0 0
MA0130.1_shift2 (ZNF354C)				; oligos_8nt_mkv6_m38 versus MA0130.1 (ZNF354C); m=2/3; ncol2=6; w=6; offset=0; strand=D; shift=2; score=0.466407; --mTCCAC------ ; cor=; Ncor= a 0 0 7.0 3.0 0.0 0.0 16.0 0.0 0 0 0 0 0 0 c 0 0 6.0 2.0 16.0 16.0 0.0 15.0 0 0 0 0 0 0 g 0 0 3.0 0.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 t 0 0 0.0 11.0 0.0 0.0 0.0 0.0 0 0 0 0 0 0
MA1601.1_rc_shift0 (ZNF75D_rc)				; oligos_8nt_mkv6_m38 versus MA1601.1_rc (ZNF75D_rc); m=3/3; ncol2=10; w=8; offset=-2; strand=R; shift=0; score=0.412131; TyTCCCACay---- ; cor=; Ncor= a 512.0 396.0 18.0 28.0 124.0 5.0 6686.0 0.0 3519.0 1225.0 0 0 0 0 c 746.0 1693.0 15.0 6678.0 6545.0 6710.0 4.0 6757.0 1468.0 1850.0 0 0 0 0 g 256.0 576.0 20.0 29.0 44.0 18.0 59.0 0.0 715.0 1573.0 0 0 0 0 t 5245.0 4094.0 6706.0 24.0 46.0 26.0 10.0 2.0 1057.0 2111.0 0 0 0 0