One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m49/peak-motifs_oligos_7nt_mkv5_m49.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_m49/peak-motifs_oligos_7nt_mkv5_m49_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m49_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m49_shift0 (oligos_7nt_mkv5_m49oligos_7nt_mkv5_m49)
; oligos_7nt_mkv5_m49 (oligos_7nt_mkv5_m49oligos_7nt_mkv5_m49); m=0 (reference); ncol1=11; shift=0; ncol=13; ssAAGCTGGss-- ; Alignment reference a 434 391 1830 1826 2 3 0 0 0 406 455 0 0 c 471 569 0 4 0 1827 6 7 0 574 488 0 0 g 625 697 0 0 1828 0 12 1823 1830 581 519 0 0 t 300 173 0 0 0 0 1812 0 0 269 368 0 0

MA1635.1_rc_shift0 (BHLHE22(var.2)_rc)
; oligos_7nt_mkv5_m49 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=1/3; ncol2=10; w=10; offset=0; strand=R; shift=0; score=0.655532; csCAGCTGsg--- ; cor=; Ncor= a 3886.0 4449.0 0.0 18267.0 1.0 14.0 0.0 14.0 1526.0 4402.0 0 0 0 c 5625.0 5112.0 18327.0 37.0 53.0 18288.0 52.0 11.0 7267.0 4447.0 0 0 0 g 4447.0 7269.0 15.0 52.0 18288.0 53.0 37.0 18331.0 5110.0 5621.0 0 0 0 t 4398.0 1526.0 14.0 0.0 14.0 1.0 18267.0 0.0 4453.0 3886.0 0 0 0

MA0095.2_shift1 (YY1)
; oligos_7nt_mkv5_m49 versus MA0095.2 (YY1); m=2/3; ncol2=12; w=10; offset=1; strand=D; shift=1; score=0.547002; -cAArATGGCkgc ; cor=; Ncor= a 0 1126.0 6975.0 6741.0 2506.0 7171.0 0.0 11.0 13.0 812.0 867.0 899.0 1332.0 c 0 4583.0 0.0 99.0 1117.0 0.0 12.0 0.0 0.0 5637.0 1681.0 875.0 4568.0 g 0 801.0 181.0 268.0 3282.0 0.0 0.0 7160.0 7158.0 38.0 2765.0 4655.0 391.0 t 0 661.0 15.0 63.0 266.0 0.0 7159.0 0.0 0.0 684.0 1858.0 742.0 880.0

MA0164.1_rc_shift2 (Nr2e3_rc)
; oligos_7nt_mkv5_m49 versus MA0164.1_rc (Nr2e3_rc); m=3/3; ncol2=7; w=7; offset=2; strand=R; shift=2; score=0.486616; --AAGCTTg---- ; cor=; Ncor= a 0 0 23.0 23.0 0.0 0.0 0.0 0.0 5.0 0 0 0 0 c 0 0 0.0 0.0 0.0 22.0 0.0 0.0 2.0 0 0 0 0 g 0 0 0.0 0.0 23.0 1.0 0.0 0.0 12.0 0 0 0 0 t 0 0 0.0 0.0 0.0 0.0 23.0 23.0 4.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m49_shift0 (oligos_7nt_mkv5_m49oligos_7nt_mkv5_m49)				; oligos_7nt_mkv5_m49 (oligos_7nt_mkv5_m49oligos_7nt_mkv5_m49); m=0 (reference); ncol1=11; shift=0; ncol=13; ssAAGCTGGss-- ; Alignment reference a 434 391 1830 1826 2 3 0 0 0 406 455 0 0 c 471 569 0 4 0 1827 6 7 0 574 488 0 0 g 625 697 0 0 1828 0 12 1823 1830 581 519 0 0 t 300 173 0 0 0 0 1812 0 0 269 368 0 0
MA1635.1_rc_shift0 (BHLHE22(var.2)_rc)				; oligos_7nt_mkv5_m49 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=1/3; ncol2=10; w=10; offset=0; strand=R; shift=0; score=0.655532; csCAGCTGsg--- ; cor=; Ncor= a 3886.0 4449.0 0.0 18267.0 1.0 14.0 0.0 14.0 1526.0 4402.0 0 0 0 c 5625.0 5112.0 18327.0 37.0 53.0 18288.0 52.0 11.0 7267.0 4447.0 0 0 0 g 4447.0 7269.0 15.0 52.0 18288.0 53.0 37.0 18331.0 5110.0 5621.0 0 0 0 t 4398.0 1526.0 14.0 0.0 14.0 1.0 18267.0 0.0 4453.0 3886.0 0 0 0
MA0095.2_shift1 (YY1)				; oligos_7nt_mkv5_m49 versus MA0095.2 (YY1); m=2/3; ncol2=12; w=10; offset=1; strand=D; shift=1; score=0.547002; -cAArATGGCkgc ; cor=; Ncor= a 0 1126.0 6975.0 6741.0 2506.0 7171.0 0.0 11.0 13.0 812.0 867.0 899.0 1332.0 c 0 4583.0 0.0 99.0 1117.0 0.0 12.0 0.0 0.0 5637.0 1681.0 875.0 4568.0 g 0 801.0 181.0 268.0 3282.0 0.0 0.0 7160.0 7158.0 38.0 2765.0 4655.0 391.0 t 0 661.0 15.0 63.0 266.0 0.0 7159.0 0.0 0.0 684.0 1858.0 742.0 880.0
MA0164.1_rc_shift2 (Nr2e3_rc)				; oligos_7nt_mkv5_m49 versus MA0164.1_rc (Nr2e3_rc); m=3/3; ncol2=7; w=7; offset=2; strand=R; shift=2; score=0.486616; --AAGCTTg---- ; cor=; Ncor= a 0 0 23.0 23.0 0.0 0.0 0.0 0.0 5.0 0 0 0 0 c 0 0 0.0 0.0 0.0 22.0 0.0 0.0 2.0 0 0 0 0 g 0 0 0.0 0.0 23.0 1.0 0.0 0.0 12.0 0 0 0 0 t 0 0 0.0 0.0 0.0 0.0 23.0 23.0 4.0 0 0 0 0