One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m38/peak-motifs_oligos_6nt_mkv3_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_Rep2_motifs50/results/discovered_motifs/oligos_6nt_mkv3_m38/peak-motifs_oligos_6nt_mkv3_m38_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m38_shift4 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m38_shift4 (oligos_6nt_mkv3_m38oligos_6nt_mkv3_m38)
; oligos_6nt_mkv3_m38 (oligos_6nt_mkv3_m38oligos_6nt_mkv3_m38); m=0 (reference); ncol1=11; shift=4; ncol=15; ----wwAAAATAGmm ; Alignment reference a 0 0 0 0 71 106 234 247 250 265 21 273 27 91 100 c 0 0 0 0 68 49 10 6 14 6 8 1 24 104 76 g 0 0 0 0 41 55 16 20 6 2 2 6 223 42 48 t 0 0 0 0 103 73 23 10 13 10 252 3 9 46 59

MA0497.1_shift0 (MEF2C)
; oligos_6nt_mkv3_m38 versus MA0497.1 (MEF2C); m=1/5; ncol2=15; w=11; offset=-4; strand=D; shift=0; score=0.701594; rdkcyAAAAATAGmw ; cor=; Ncor= a 705.0 733.0 431.0 382.0 0.0 1616.0 1706.0 2107.0 2131.0 2135.0 56.0 2177.0 389.0 975.0 1009.0 c 321.0 151.0 196.0 1412.0 985.0 256.0 32.0 0.0 0.0 0.0 62.0 0.0 120.0 836.0 450.0 g 676.0 573.0 822.0 78.0 0.0 74.0 241.0 87.0 2.0 4.0 0.0 32.0 1671.0 148.0 126.0 t 507.0 752.0 760.0 337.0 1224.0 263.0 230.0 15.0 76.0 70.0 2091.0 0.0 29.0 250.0 624.0

MA0052.4_shift1 (MEF2A)
; oligos_6nt_mkv3_m38 versus MA0052.4 (MEF2A); m=2/5; ncol2=15; w=11; offset=-3; strand=D; shift=1; score=0.690927; -wkcTAAAAATAGaw ; cor=; Ncor= a 0 5075.0 4033.0 1984.0 627.0 12437.0 13132.0 14680.0 14453.0 14956.0 441.0 15582.0 2566.0 7709.0 6171.0 c 0 2119.0 1960.0 10919.0 2974.0 1013.0 253.0 141.0 231.0 173.0 349.0 50.0 1060.0 4039.0 3523.0 g 0 3651.0 4493.0 1007.0 236.0 1066.0 610.0 506.0 241.0 202.0 215.0 422.0 11104.0 1605.0 1810.0 t 0 5317.0 5676.0 2252.0 12325.0 1646.0 2167.0 835.0 1237.0 831.0 15157.0 108.0 1432.0 2809.0 4658.0

MA0773.1_shift2 (MEF2D)
; oligos_6nt_mkv3_m38 versus MA0773.1 (MEF2D); m=3/5; ncol2=12; w=10; offset=-2; strand=D; shift=2; score=0.66705; --dCTAwAAATAGm- ; cor=; Ncor= a 0 0 2120.0 28.0 3.0 5803.0 2782.0 5803.0 5803.0 5803.0 0.0 5803.0 339.0 3206.0 0 c 0 0 109.0 5803.0 22.0 8.0 0.0 4.0 0.0 2.0 0.0 0.0 17.0 2598.0 0 g 0 0 1933.0 0.0 0.0 2.0 2.0 0.0 2.0 1.0 0.0 4.0 5803.0 70.0 0 t 0 0 1642.0 53.0 5803.0 6.0 3021.0 778.0 217.0 69.0 5803.0 0.0 5.0 585.0 0

MA0660.1_shift2 (MEF2B)
; oligos_6nt_mkv3_m38 versus MA0660.1 (MEF2B); m=4/5; ncol2=12; w=10; offset=-2; strand=D; shift=2; score=0.662702; --rCTAwAAATAGm- ; cor=; Ncor= a 0 0 1385.0 18.0 0.0 3150.0 1495.0 3150.0 3150.0 3150.0 0.0 3150.0 98.0 1013.0 0 c 0 0 72.0 3150.0 25.0 0.0 2.0 0.0 3.0 0.0 0.0 3.0 19.0 2138.0 0 g 0 0 1766.0 0.0 0.0 0.0 0.0 12.0 2.0 0.0 0.0 2.0 3150.0 99.0 0 t 0 0 505.0 12.0 3150.0 15.0 1655.0 710.0 143.0 45.0 3150.0 3.0 3.0 506.0 0

MA0087.1_rc_shift4 (Sox5_rc)
; oligos_6nt_mkv3_m38 versus MA0087.1_rc (Sox5_rc); m=5/5; ncol2=7; w=7; offset=0; strand=R; shift=4; score=0.450059; ----wAACAAT---- ; cor=; Ncor= a 0 0 0 0 8.0 21.0 22.0 0.0 23.0 22.0 0.0 0 0 0 0 c 0 0 0 0 4.0 0.0 0.0 22.0 0.0 1.0 0.0 0 0 0 0 g 0 0 0 0 3.0 1.0 1.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 8.0 1.0 0.0 1.0 0.0 0.0 23.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m38_shift4 (oligos_6nt_mkv3_m38oligos_6nt_mkv3_m38)				; oligos_6nt_mkv3_m38 (oligos_6nt_mkv3_m38oligos_6nt_mkv3_m38); m=0 (reference); ncol1=11; shift=4; ncol=15; ----wwAAAATAGmm ; Alignment reference a 0 0 0 0 71 106 234 247 250 265 21 273 27 91 100 c 0 0 0 0 68 49 10 6 14 6 8 1 24 104 76 g 0 0 0 0 41 55 16 20 6 2 2 6 223 42 48 t 0 0 0 0 103 73 23 10 13 10 252 3 9 46 59
MA0497.1_shift0 (MEF2C)				; oligos_6nt_mkv3_m38 versus MA0497.1 (MEF2C); m=1/5; ncol2=15; w=11; offset=-4; strand=D; shift=0; score=0.701594; rdkcyAAAAATAGmw ; cor=; Ncor= a 705.0 733.0 431.0 382.0 0.0 1616.0 1706.0 2107.0 2131.0 2135.0 56.0 2177.0 389.0 975.0 1009.0 c 321.0 151.0 196.0 1412.0 985.0 256.0 32.0 0.0 0.0 0.0 62.0 0.0 120.0 836.0 450.0 g 676.0 573.0 822.0 78.0 0.0 74.0 241.0 87.0 2.0 4.0 0.0 32.0 1671.0 148.0 126.0 t 507.0 752.0 760.0 337.0 1224.0 263.0 230.0 15.0 76.0 70.0 2091.0 0.0 29.0 250.0 624.0
MA0052.4_shift1 (MEF2A)				; oligos_6nt_mkv3_m38 versus MA0052.4 (MEF2A); m=2/5; ncol2=15; w=11; offset=-3; strand=D; shift=1; score=0.690927; -wkcTAAAAATAGaw ; cor=; Ncor= a 0 5075.0 4033.0 1984.0 627.0 12437.0 13132.0 14680.0 14453.0 14956.0 441.0 15582.0 2566.0 7709.0 6171.0 c 0 2119.0 1960.0 10919.0 2974.0 1013.0 253.0 141.0 231.0 173.0 349.0 50.0 1060.0 4039.0 3523.0 g 0 3651.0 4493.0 1007.0 236.0 1066.0 610.0 506.0 241.0 202.0 215.0 422.0 11104.0 1605.0 1810.0 t 0 5317.0 5676.0 2252.0 12325.0 1646.0 2167.0 835.0 1237.0 831.0 15157.0 108.0 1432.0 2809.0 4658.0
MA0773.1_shift2 (MEF2D)				; oligos_6nt_mkv3_m38 versus MA0773.1 (MEF2D); m=3/5; ncol2=12; w=10; offset=-2; strand=D; shift=2; score=0.66705; --dCTAwAAATAGm- ; cor=; Ncor= a 0 0 2120.0 28.0 3.0 5803.0 2782.0 5803.0 5803.0 5803.0 0.0 5803.0 339.0 3206.0 0 c 0 0 109.0 5803.0 22.0 8.0 0.0 4.0 0.0 2.0 0.0 0.0 17.0 2598.0 0 g 0 0 1933.0 0.0 0.0 2.0 2.0 0.0 2.0 1.0 0.0 4.0 5803.0 70.0 0 t 0 0 1642.0 53.0 5803.0 6.0 3021.0 778.0 217.0 69.0 5803.0 0.0 5.0 585.0 0
MA0660.1_shift2 (MEF2B)				; oligos_6nt_mkv3_m38 versus MA0660.1 (MEF2B); m=4/5; ncol2=12; w=10; offset=-2; strand=D; shift=2; score=0.662702; --rCTAwAAATAGm- ; cor=; Ncor= a 0 0 1385.0 18.0 0.0 3150.0 1495.0 3150.0 3150.0 3150.0 0.0 3150.0 98.0 1013.0 0 c 0 0 72.0 3150.0 25.0 0.0 2.0 0.0 3.0 0.0 0.0 3.0 19.0 2138.0 0 g 0 0 1766.0 0.0 0.0 0.0 0.0 12.0 2.0 0.0 0.0 2.0 3150.0 99.0 0 t 0 0 505.0 12.0 3150.0 15.0 1655.0 710.0 143.0 45.0 3150.0 3.0 3.0 506.0 0
MA0087.1_rc_shift4 (Sox5_rc)				; oligos_6nt_mkv3_m38 versus MA0087.1_rc (Sox5_rc); m=5/5; ncol2=7; w=7; offset=0; strand=R; shift=4; score=0.450059; ----wAACAAT---- ; cor=; Ncor= a 0 0 0 0 8.0 21.0 22.0 0.0 23.0 22.0 0.0 0 0 0 0 c 0 0 0 0 4.0 0.0 0.0 22.0 0.0 1.0 0.0 0 0 0 0 g 0 0 0 0 3.0 1.0 1.0 0.0 0.0 0.0 0.0 0 0 0 0 t 0 0 0 0 8.0 1.0 0.0 1.0 0.0 0.0 23.0 0 0 0 0