One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_8nt_m1/peak-motifs_positions_8nt_m1.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_8nt_m1/peak-motifs_positions_8nt_m1_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: positions_8nt_m1_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_8nt_m1_shift0 (positions_8nt_m1positions_8nt_m1)
; positions_8nt_m1 (positions_8nt_m1positions_8nt_m1); m=0 (reference); ncol1=22; shift=0; ncol=22; kskGCCAGCTGCAGCTGTTGcy ; Alignment reference a 17 13 23 6 14 6 98 2 2 9 3 0 96 1 0 3 1 3 2 4 21 21 c 26 39 15 7 88 99 4 5 102 5 4 111 2 5 108 0 5 22 0 9 47 29 g 41 43 31 93 10 2 2 103 6 1 102 0 1 106 2 3 105 5 11 92 27 21 t 28 17 43 6 0 5 8 2 2 97 3 1 13 0 2 106 1 82 99 7 17 41

MA1485.1_shift7 (FERD3L)
; positions_8nt_m1 versus MA1485.1 (FERD3L); m=1/6; ncol2=14; w=14; offset=7; strand=D; shift=7; score=0.464981; -------GyrmCAGCTGTyAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 c 0 0 0 0 0 0 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 g 0 0 0 0 0 0 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 t 0 0 0 0 0 0 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0

MA0832.1_shift7 (Tcf21)
; positions_8nt_m1 versus MA0832.1 (Tcf21); m=2/6; ncol2=14; w=14; offset=7; strand=D; shift=7; score=0.454759; -------ryAACAGCTGTTry- ; cor=; Ncor= a 0 0 0 0 0 0 0 55.0 28.0 171.0 171.0 0.0 171.0 0.0 0.0 0.0 0.0 0.0 5.0 50.0 30.0 0 c 0 0 0 0 0 0 0 29.0 76.0 1.0 10.0 171.0 1.0 0.0 171.0 0.0 0.0 4.0 23.0 23.0 49.0 0 g 0 0 0 0 0 0 0 70.0 22.0 23.0 0.0 0.0 0.0 171.0 1.0 0.0 171.0 20.0 0.0 80.0 32.0 0 t 0 0 0 0 0 0 0 17.0 46.0 3.0 0.0 0.0 0.0 2.0 1.0 171.0 0.0 171.0 171.0 19.0 60.0 0

MA0500.2_shift8 (MYOG)
; positions_8nt_m1 versus MA0500.2 (MYOG); m=3/6; ncol2=12; w=12; offset=8; strand=D; shift=8; score=0.437901; --------sarCAGCTGyts-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 5310.0 8428.0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 4667.0 5018.0 0 0 c 0 0 0 0 0 0 0 0 6381.0 3754.0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 5497.0 5660.0 0 0 g 0 0 0 0 0 0 0 0 5596.0 5483.0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 3718.0 6369.0 0 0 t 0 0 0 0 0 0 0 0 5070.0 4692.0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 8475.0 5310.0 0 0

MA0521.1_rc_shift8 (Tcf12_rc)
; positions_8nt_m1 versus MA0521.1_rc (Tcf12_rc); m=4/6; ncol2=11; w=11; offset=8; strand=R; shift=8; score=0.435523; --------cwsCAGCTGYy--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2191.0 3642.0 1682.0 0.0 12895.0 0.0 0.0 0.0 0.0 0.0 17.0 0 0 0 c 0 0 0 0 0 0 0 0 4836.0 2925.0 3811.0 12895.0 0.0 1889.0 12887.0 0.0 0.0 3951.0 5123.0 0 0 0 g 0 0 0 0 0 0 0 0 3005.0 2416.0 5527.0 0.0 0.0 10822.0 0.0 0.0 12895.0 124.0 1585.0 0 0 0 t 0 0 0 0 0 0 0 0 2863.0 3912.0 1875.0 0.0 0.0 184.0 8.0 12895.0 0.0 8820.0 6170.0 0 0 0

MA0499.2_shift8 (MYOD1)
; positions_8nt_m1 versus MA0499.2 (MYOD1); m=5/6; ncol2=13; w=13; offset=8; strand=D; shift=8; score=0.425454; --------cwgCACCTGTymy- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 c 0 0 0 0 0 0 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 g 0 0 0 0 0 0 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 t 0 0 0 0 0 0 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0

MA1619.1_rc_shift8 (Ptf1a(var.2)_rc)
; positions_8nt_m1 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=6/6; ncol2=12; w=12; offset=8; strand=R; shift=8; score=0.403183; --------rmaCAGCTGtky-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1871.0 1974.0 4341.0 49.0 7121.0 33.0 223.0 28.0 27.0 529.0 1216.0 1607.0 0 0 c 0 0 0 0 0 0 0 0 1803.0 2426.0 1065.0 7150.0 40.0 299.0 6689.0 65.0 28.0 1308.0 1629.0 1974.0 0 0 g 0 0 0 0 0 0 0 0 1977.0 1632.0 1312.0 27.0 66.0 6697.0 307.0 41.0 7149.0 1070.0 2430.0 1803.0 0 0 t 0 0 0 0 0 0 0 0 1602.0 1221.0 535.0 27.0 26.0 224.0 34.0 7119.0 49.0 4346.0 1978.0 1869.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_8nt_m1_shift0 (positions_8nt_m1positions_8nt_m1)				; positions_8nt_m1 (positions_8nt_m1positions_8nt_m1); m=0 (reference); ncol1=22; shift=0; ncol=22; kskGCCAGCTGCAGCTGTTGcy ; Alignment reference a 17 13 23 6 14 6 98 2 2 9 3 0 96 1 0 3 1 3 2 4 21 21 c 26 39 15 7 88 99 4 5 102 5 4 111 2 5 108 0 5 22 0 9 47 29 g 41 43 31 93 10 2 2 103 6 1 102 0 1 106 2 3 105 5 11 92 27 21 t 28 17 43 6 0 5 8 2 2 97 3 1 13 0 2 106 1 82 99 7 17 41
MA1485.1_shift7 (FERD3L)				; positions_8nt_m1 versus MA1485.1 (FERD3L); m=1/6; ncol2=14; w=14; offset=7; strand=D; shift=7; score=0.464981; -------GyrmCAGCTGTyAC- ; cor=; Ncor= a 0 0 0 0 0 0 0 2158.0 450.0 14384.0 15390.0 36.0 29605.0 0.0 3649.0 81.0 0.0 1268.0 103.0 29605.0 0.0 0 c 0 0 0 0 0 0 0 68.0 20049.0 2443.0 9363.0 29605.0 126.0 841.0 29605.0 129.0 0.0 3878.0 8664.0 809.0 29605.0 0 g 0 0 0 0 0 0 0 29605.0 348.0 12703.0 3142.0 0.0 118.0 29605.0 471.0 210.0 29605.0 3395.0 5920.0 9815.0 0.0 0 t 0 0 0 0 0 0 0 225.0 9557.0 74.0 1710.0 0.0 144.0 4691.0 0.0 29605.0 0.0 21065.0 14919.0 958.0 48.0 0
MA0832.1_shift7 (Tcf21)				; positions_8nt_m1 versus MA0832.1 (Tcf21); m=2/6; ncol2=14; w=14; offset=7; strand=D; shift=7; score=0.454759; -------ryAACAGCTGTTry- ; cor=; Ncor= a 0 0 0 0 0 0 0 55.0 28.0 171.0 171.0 0.0 171.0 0.0 0.0 0.0 0.0 0.0 5.0 50.0 30.0 0 c 0 0 0 0 0 0 0 29.0 76.0 1.0 10.0 171.0 1.0 0.0 171.0 0.0 0.0 4.0 23.0 23.0 49.0 0 g 0 0 0 0 0 0 0 70.0 22.0 23.0 0.0 0.0 0.0 171.0 1.0 0.0 171.0 20.0 0.0 80.0 32.0 0 t 0 0 0 0 0 0 0 17.0 46.0 3.0 0.0 0.0 0.0 2.0 1.0 171.0 0.0 171.0 171.0 19.0 60.0 0
MA0500.2_shift8 (MYOG)				; positions_8nt_m1 versus MA0500.2 (MYOG); m=3/6; ncol2=12; w=12; offset=8; strand=D; shift=8; score=0.437901; --------sarCAGCTGyts-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 5310.0 8428.0 7159.0 86.0 21782.0 95.0 167.0 163.0 182.0 1667.0 4667.0 5018.0 0 0 c 0 0 0 0 0 0 0 0 6381.0 3754.0 2730.0 21988.0 176.0 130.0 21964.0 238.0 102.0 10792.0 5497.0 5660.0 0 0 g 0 0 0 0 0 0 0 0 5596.0 5483.0 10790.0 101.0 236.0 21963.0 131.0 179.0 21985.0 2706.0 3718.0 6369.0 0 0 t 0 0 0 0 0 0 0 0 5070.0 4692.0 1678.0 182.0 163.0 169.0 95.0 21777.0 88.0 7192.0 8475.0 5310.0 0 0
MA0521.1_rc_shift8 (Tcf12_rc)				; positions_8nt_m1 versus MA0521.1_rc (Tcf12_rc); m=4/6; ncol2=11; w=11; offset=8; strand=R; shift=8; score=0.435523; --------cwsCAGCTGYy--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 2191.0 3642.0 1682.0 0.0 12895.0 0.0 0.0 0.0 0.0 0.0 17.0 0 0 0 c 0 0 0 0 0 0 0 0 4836.0 2925.0 3811.0 12895.0 0.0 1889.0 12887.0 0.0 0.0 3951.0 5123.0 0 0 0 g 0 0 0 0 0 0 0 0 3005.0 2416.0 5527.0 0.0 0.0 10822.0 0.0 0.0 12895.0 124.0 1585.0 0 0 0 t 0 0 0 0 0 0 0 0 2863.0 3912.0 1875.0 0.0 0.0 184.0 8.0 12895.0 0.0 8820.0 6170.0 0 0 0
MA0499.2_shift8 (MYOD1)				; positions_8nt_m1 versus MA0499.2 (MYOD1); m=5/6; ncol2=13; w=13; offset=8; strand=D; shift=8; score=0.425454; --------cwgCACCTGTymy- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 7175.0 9462.0 4549.0 349.0 32281.0 463.0 534.0 241.0 208.0 402.0 1808.0 9462.0 5687.0 0 c 0 0 0 0 0 0 0 0 11279.0 7103.0 5622.0 33328.0 583.0 25275.0 32504.0 563.0 386.0 2555.0 19052.0 10485.0 11760.0 0 g 0 0 0 0 0 0 0 0 8118.0 8444.0 21884.0 354.0 849.0 7336.0 932.0 366.0 33468.0 1699.0 4440.0 6202.0 7495.0 0 t 0 0 0 0 0 0 0 0 7728.0 9291.0 2245.0 269.0 587.0 1226.0 330.0 33130.0 238.0 29644.0 9000.0 8151.0 9358.0 0
MA1619.1_rc_shift8 (Ptf1a(var.2)_rc)				; positions_8nt_m1 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=6/6; ncol2=12; w=12; offset=8; strand=R; shift=8; score=0.403183; --------rmaCAGCTGtky-- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 1871.0 1974.0 4341.0 49.0 7121.0 33.0 223.0 28.0 27.0 529.0 1216.0 1607.0 0 0 c 0 0 0 0 0 0 0 0 1803.0 2426.0 1065.0 7150.0 40.0 299.0 6689.0 65.0 28.0 1308.0 1629.0 1974.0 0 0 g 0 0 0 0 0 0 0 0 1977.0 1632.0 1312.0 27.0 66.0 6697.0 307.0 41.0 7149.0 1070.0 2430.0 1803.0 0 0 t 0 0 0 0 0 0 0 0 1602.0 1221.0 535.0 27.0 26.0 224.0 34.0 7119.0 49.0 4346.0 1978.0 1869.0 0 0