One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_6nt_m7/peak-motifs_positions_6nt_m7.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/positions_6nt_m7/peak-motifs_positions_6nt_m7_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: positions_6nt_m7_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_6nt_m7_shift0 (positions_6nt_m7positions_6nt_m7)
; positions_6nt_m7 (positions_6nt_m7positions_6nt_m7); m=0 (reference); ncol1=23; shift=0; ncol=23; vsAGCTGGCAGCTGCAGCAGCws ; Alignment reference a 12 5 35 3 4 2 2 5 1 40 1 1 2 1 1 37 3 3 40 1 4 12 8 c 12 17 6 1 36 6 3 0 43 1 1 42 2 1 41 4 0 40 2 2 40 7 12 g 13 18 5 39 5 5 42 41 1 3 45 3 1 45 1 2 43 2 2 42 2 10 20 t 10 7 1 4 2 34 0 1 2 3 0 1 42 0 4 4 1 2 3 2 1 18 7

MA0500.2_rc_shift5 (MYOG_rc)
; positions_6nt_m7 versus MA0500.2_rc (MYOG_rc); m=1/3; ncol2=12; w=12; offset=5; strand=R; shift=5; score=0.413172; -----sarCAGCTGyts------ ; cor=; Ncor= a 0 0 0 0 0 5310.0 8475.0 7192.0 88.0 21777.0 95.0 169.0 163.0 182.0 1678.0 4692.0 5070.0 0 0 0 0 0 0 c 0 0 0 0 0 6369.0 3718.0 2706.0 21985.0 179.0 131.0 21963.0 236.0 101.0 10790.0 5483.0 5596.0 0 0 0 0 0 0 g 0 0 0 0 0 5660.0 5497.0 10792.0 102.0 238.0 21964.0 130.0 176.0 21988.0 2730.0 3754.0 6381.0 0 0 0 0 0 0 t 0 0 0 0 0 5018.0 4667.0 1667.0 182.0 163.0 167.0 95.0 21782.0 86.0 7159.0 8428.0 5310.0 0 0 0 0 0 0

MA1631.1_rc_shift4 (ASCL1(var.2)_rc)
; positions_6nt_m7 versus MA1631.1_rc (ASCL1(var.2)_rc); m=2/3; ncol2=13; w=13; offset=4; strand=R; shift=4; score=0.41155; ----gsrGCAGGTGchg------ ; cor=; Ncor= a 0 0 0 0 8032.0 7779.0 9017.0 2394.0 249.0 32756.0 151.0 815.0 618.0 289.0 3290.0 8805.0 7347.0 0 0 0 0 0 0 c 0 0 0 0 8356.0 8939.0 2966.0 2719.0 33411.0 492.0 607.0 3209.0 860.0 321.0 18576.0 8601.0 8371.0 0 0 0 0 0 0 g 0 0 0 0 11996.0 10555.0 17883.0 28844.0 445.0 740.0 33402.0 30169.0 563.0 33562.0 6654.0 7998.0 11805.0 0 0 0 0 0 0 t 0 0 0 0 5972.0 7083.0 4490.0 399.0 251.0 368.0 196.0 163.0 32315.0 184.0 5836.0 8952.0 6833.0 0 0 0 0 0 0

MA0830.2_rc_shift4 (TCF4_rc)
; positions_6nt_m7 versus MA0830.2_rc (TCF4_rc); m=3/3; ncol2=13; w=13; offset=4; strand=R; shift=4; score=0.400389; ----ssggCAGGTGccg------ ; cor=; Ncor= a 0 0 0 0 6827.0 6430.0 6126.0 3555.0 242.0 27398.0 188.0 751.0 512.0 215.0 1737.0 7059.0 6225.0 0 0 0 0 0 0 c 0 0 0 0 7662.0 7964.0 4933.0 5281.0 28432.0 679.0 1197.0 1733.0 1295.0 321.0 18498.0 8618.0 7140.0 0 0 0 0 0 0 g 0 0 0 0 9843.0 8658.0 12872.0 18935.0 540.0 1016.0 27724.0 26765.0 635.0 28686.0 5062.0 6754.0 10052.0 0 0 0 0 0 0 t 0 0 0 0 5133.0 6413.0 5534.0 1694.0 251.0 372.0 356.0 216.0 27023.0 243.0 4168.0 7034.0 6048.0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m7_shift0 (positions_6nt_m7positions_6nt_m7)				; positions_6nt_m7 (positions_6nt_m7positions_6nt_m7); m=0 (reference); ncol1=23; shift=0; ncol=23; vsAGCTGGCAGCTGCAGCAGCws ; Alignment reference a 12 5 35 3 4 2 2 5 1 40 1 1 2 1 1 37 3 3 40 1 4 12 8 c 12 17 6 1 36 6 3 0 43 1 1 42 2 1 41 4 0 40 2 2 40 7 12 g 13 18 5 39 5 5 42 41 1 3 45 3 1 45 1 2 43 2 2 42 2 10 20 t 10 7 1 4 2 34 0 1 2 3 0 1 42 0 4 4 1 2 3 2 1 18 7
MA0500.2_rc_shift5 (MYOG_rc)				; positions_6nt_m7 versus MA0500.2_rc (MYOG_rc); m=1/3; ncol2=12; w=12; offset=5; strand=R; shift=5; score=0.413172; -----sarCAGCTGyts------ ; cor=; Ncor= a 0 0 0 0 0 5310.0 8475.0 7192.0 88.0 21777.0 95.0 169.0 163.0 182.0 1678.0 4692.0 5070.0 0 0 0 0 0 0 c 0 0 0 0 0 6369.0 3718.0 2706.0 21985.0 179.0 131.0 21963.0 236.0 101.0 10790.0 5483.0 5596.0 0 0 0 0 0 0 g 0 0 0 0 0 5660.0 5497.0 10792.0 102.0 238.0 21964.0 130.0 176.0 21988.0 2730.0 3754.0 6381.0 0 0 0 0 0 0 t 0 0 0 0 0 5018.0 4667.0 1667.0 182.0 163.0 167.0 95.0 21782.0 86.0 7159.0 8428.0 5310.0 0 0 0 0 0 0
MA1631.1_rc_shift4 (ASCL1(var.2)_rc)				; positions_6nt_m7 versus MA1631.1_rc (ASCL1(var.2)_rc); m=2/3; ncol2=13; w=13; offset=4; strand=R; shift=4; score=0.41155; ----gsrGCAGGTGchg------ ; cor=; Ncor= a 0 0 0 0 8032.0 7779.0 9017.0 2394.0 249.0 32756.0 151.0 815.0 618.0 289.0 3290.0 8805.0 7347.0 0 0 0 0 0 0 c 0 0 0 0 8356.0 8939.0 2966.0 2719.0 33411.0 492.0 607.0 3209.0 860.0 321.0 18576.0 8601.0 8371.0 0 0 0 0 0 0 g 0 0 0 0 11996.0 10555.0 17883.0 28844.0 445.0 740.0 33402.0 30169.0 563.0 33562.0 6654.0 7998.0 11805.0 0 0 0 0 0 0 t 0 0 0 0 5972.0 7083.0 4490.0 399.0 251.0 368.0 196.0 163.0 32315.0 184.0 5836.0 8952.0 6833.0 0 0 0 0 0 0
MA0830.2_rc_shift4 (TCF4_rc)				; positions_6nt_m7 versus MA0830.2_rc (TCF4_rc); m=3/3; ncol2=13; w=13; offset=4; strand=R; shift=4; score=0.400389; ----ssggCAGGTGccg------ ; cor=; Ncor= a 0 0 0 0 6827.0 6430.0 6126.0 3555.0 242.0 27398.0 188.0 751.0 512.0 215.0 1737.0 7059.0 6225.0 0 0 0 0 0 0 c 0 0 0 0 7662.0 7964.0 4933.0 5281.0 28432.0 679.0 1197.0 1733.0 1295.0 321.0 18498.0 8618.0 7140.0 0 0 0 0 0 0 g 0 0 0 0 9843.0 8658.0 12872.0 18935.0 540.0 1016.0 27724.0 26765.0 635.0 28686.0 5062.0 6754.0 10052.0 0 0 0 0 0 0 t 0 0 0 0 5133.0 6413.0 5534.0 1694.0 251.0 372.0 356.0 216.0 27023.0 243.0 4168.0 7034.0 6048.0 0 0 0 0 0 0