One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/positions_7nt_m23/peak-motifs_positions_7nt_m23.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_7nt_m23/peak-motifs_positions_7nt_m23_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: positions_7nt_m23_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
positions_7nt_m23_shift0 (positions_7nt_m23positions_7nt_m23)
; positions_7nt_m23 (positions_7nt_m23positions_7nt_m23); m=0 (reference); ncol1=19; shift=0; ncol=19; ccAGCTGCCAGCTGCAsyb ; Alignment reference a 66 40 244 10 8 8 3 30 4 257 10 7 10 8 7 203 48 57 34 c 90 154 6 22 252 9 10 214 261 6 7 257 11 11 247 38 116 76 95 g 67 51 13 229 7 3 255 12 4 3 231 5 9 239 9 13 68 64 69 t 49 27 9 11 5 252 4 16 3 6 24 3 242 14 9 18 40 75 74

MA0500.2_shift5 (MYOG)
; positions_7nt_m23 versus MA0500.2 (MYOG); m=1/6; ncol2=12; w=12; offset=5; strand=D; shift=5; score=0.471357; -----sarCAGCTGyts-- ; cor=; Ncor= a 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 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 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 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_shift6 (Tcf12)
; positions_7nt_m23 versus MA0521.1 (Tcf12); m=2/6; ncol2=11; w=11; offset=6; strand=D; shift=6; score=0.451382; ------rRCAGCTGswg-- ; cor=; Ncor= a 0 0 0 0 0 0 6170.0 8820.0 0.0 12895.0 8.0 184.0 0.0 0.0 1875.0 3912.0 2863.0 0 0 c 0 0 0 0 0 0 1585.0 124.0 12895.0 0.0 0.0 10822.0 0.0 0.0 5527.0 2416.0 3005.0 0 0 g 0 0 0 0 0 0 5123.0 3951.0 0.0 0.0 12887.0 1889.0 0.0 12895.0 3811.0 2925.0 4836.0 0 0 t 0 0 0 0 0 0 17.0 0.0 0.0 0.0 0.0 0.0 12895.0 0.0 1682.0 3642.0 2191.0 0 0

MA1635.1_rc_shift6 (BHLHE22(var.2)_rc)
; positions_7nt_m23 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=3/6; ncol2=10; w=10; offset=6; strand=R; shift=6; score=0.430871; ------csCAGCTGsg--- ; cor=; Ncor= a 0 0 0 0 0 0 3886.0 4449.0 0.0 18267.0 1.0 14.0 0.0 14.0 1526.0 4402.0 0 0 0 c 0 0 0 0 0 0 5625.0 5112.0 18327.0 37.0 53.0 18288.0 52.0 11.0 7267.0 4447.0 0 0 0 g 0 0 0 0 0 0 4447.0 7269.0 15.0 52.0 18288.0 53.0 37.0 18331.0 5110.0 5621.0 0 0 0 t 0 0 0 0 0 0 4398.0 1526.0 14.0 0.0 14.0 1.0 18267.0 0.0 4453.0 3886.0 0 0 0

MA1100.2_rc_shift6 (ASCL1_rc)
; positions_7nt_m23 versus MA1100.2_rc (ASCL1_rc); m=4/6; ncol2=10; w=10; offset=6; strand=R; shift=6; score=0.41947; ------rgCAGCTGyy--- ; cor=; Ncor= a 0 0 0 0 0 0 1194.0 1349.0 29.0 4413.0 20.0 625.0 218.0 14.0 354.0 726.0 0 0 0 c 0 0 0 0 0 0 889.0 814.0 4413.0 121.0 1320.0 4413.0 60.0 0.0 3079.0 1495.0 0 0 0 g 0 0 0 0 0 0 1487.0 3065.0 0.0 24.0 4413.0 1288.0 157.0 4413.0 521.0 926.0 0 0 0 t 0 0 0 0 0 0 843.0 177.0 52.0 118.0 729.0 107.0 4413.0 0.0 1334.0 1267.0 0 0 0

MA0522.3_shift6 (TCF3)
; positions_7nt_m23 versus MA0522.3 (TCF3); m=5/6; ncol2=11; w=11; offset=6; strand=D; shift=6; score=0.416562; ------svCACCTGCss-- ; cor=; Ncor= a 0 0 0 0 0 0 6270.0 8032.0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 7276.0 5485.0 0 0 c 0 0 0 0 0 0 10212.0 9269.0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 8727.0 10122.0 0 0 g 0 0 0 0 0 0 8539.0 9432.0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 8025.0 9222.0 0 0 t 0 0 0 0 0 0 6240.0 4528.0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0 7233.0 6432.0 0 0

MA1648.1_shift6 (TCF12(var.2))
; positions_7nt_m23 versus MA1648.1 (TCF12(var.2)); m=6/6; ncol2=11; w=11; offset=6; strand=D; shift=6; score=0.415931; ------ssCACCTGCys-- ; cor=; Ncor= a 0 0 0 0 0 0 13014.0 14835.0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 13867.0 11414.0 0 0 c 0 0 0 0 0 0 19393.0 17594.0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 17603.0 18154.0 0 0 g 0 0 0 0 0 0 16996.0 18560.0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 14293.0 20060.0 0 0 t 0 0 0 0 0 0 12473.0 10887.0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0 16113.0 12248.0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_7nt_m23_shift0 (positions_7nt_m23positions_7nt_m23)				; positions_7nt_m23 (positions_7nt_m23positions_7nt_m23); m=0 (reference); ncol1=19; shift=0; ncol=19; ccAGCTGCCAGCTGCAsyb ; Alignment reference a 66 40 244 10 8 8 3 30 4 257 10 7 10 8 7 203 48 57 34 c 90 154 6 22 252 9 10 214 261 6 7 257 11 11 247 38 116 76 95 g 67 51 13 229 7 3 255 12 4 3 231 5 9 239 9 13 68 64 69 t 49 27 9 11 5 252 4 16 3 6 24 3 242 14 9 18 40 75 74
MA0500.2_shift5 (MYOG)				; positions_7nt_m23 versus MA0500.2 (MYOG); m=1/6; ncol2=12; w=12; offset=5; strand=D; shift=5; score=0.471357; -----sarCAGCTGyts-- ; cor=; Ncor= a 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 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 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 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_shift6 (Tcf12)				; positions_7nt_m23 versus MA0521.1 (Tcf12); m=2/6; ncol2=11; w=11; offset=6; strand=D; shift=6; score=0.451382; ------rRCAGCTGswg-- ; cor=; Ncor= a 0 0 0 0 0 0 6170.0 8820.0 0.0 12895.0 8.0 184.0 0.0 0.0 1875.0 3912.0 2863.0 0 0 c 0 0 0 0 0 0 1585.0 124.0 12895.0 0.0 0.0 10822.0 0.0 0.0 5527.0 2416.0 3005.0 0 0 g 0 0 0 0 0 0 5123.0 3951.0 0.0 0.0 12887.0 1889.0 0.0 12895.0 3811.0 2925.0 4836.0 0 0 t 0 0 0 0 0 0 17.0 0.0 0.0 0.0 0.0 0.0 12895.0 0.0 1682.0 3642.0 2191.0 0 0
MA1635.1_rc_shift6 (BHLHE22(var.2)_rc)				; positions_7nt_m23 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=3/6; ncol2=10; w=10; offset=6; strand=R; shift=6; score=0.430871; ------csCAGCTGsg--- ; cor=; Ncor= a 0 0 0 0 0 0 3886.0 4449.0 0.0 18267.0 1.0 14.0 0.0 14.0 1526.0 4402.0 0 0 0 c 0 0 0 0 0 0 5625.0 5112.0 18327.0 37.0 53.0 18288.0 52.0 11.0 7267.0 4447.0 0 0 0 g 0 0 0 0 0 0 4447.0 7269.0 15.0 52.0 18288.0 53.0 37.0 18331.0 5110.0 5621.0 0 0 0 t 0 0 0 0 0 0 4398.0 1526.0 14.0 0.0 14.0 1.0 18267.0 0.0 4453.0 3886.0 0 0 0
MA1100.2_rc_shift6 (ASCL1_rc)				; positions_7nt_m23 versus MA1100.2_rc (ASCL1_rc); m=4/6; ncol2=10; w=10; offset=6; strand=R; shift=6; score=0.41947; ------rgCAGCTGyy--- ; cor=; Ncor= a 0 0 0 0 0 0 1194.0 1349.0 29.0 4413.0 20.0 625.0 218.0 14.0 354.0 726.0 0 0 0 c 0 0 0 0 0 0 889.0 814.0 4413.0 121.0 1320.0 4413.0 60.0 0.0 3079.0 1495.0 0 0 0 g 0 0 0 0 0 0 1487.0 3065.0 0.0 24.0 4413.0 1288.0 157.0 4413.0 521.0 926.0 0 0 0 t 0 0 0 0 0 0 843.0 177.0 52.0 118.0 729.0 107.0 4413.0 0.0 1334.0 1267.0 0 0 0
MA0522.3_shift6 (TCF3)				; positions_7nt_m23 versus MA0522.3 (TCF3); m=5/6; ncol2=11; w=11; offset=6; strand=D; shift=6; score=0.416562; ------svCACCTGCss-- ; cor=; Ncor= a 0 0 0 0 0 0 6270.0 8032.0 469.0 28916.0 309.0 1127.0 380.0 1089.0 295.0 7276.0 5485.0 0 0 c 0 0 0 0 0 0 10212.0 9269.0 29379.0 396.0 28640.0 27199.0 2003.0 1038.0 28742.0 8727.0 10122.0 0 0 g 0 0 0 0 0 0 8539.0 9432.0 708.0 1574.0 1362.0 2652.0 1339.0 28642.0 987.0 8025.0 9222.0 0 0 t 0 0 0 0 0 0 6240.0 4528.0 705.0 375.0 950.0 283.0 27539.0 492.0 1237.0 7233.0 6432.0 0 0
MA1648.1_shift6 (TCF12(var.2))				; positions_7nt_m23 versus MA1648.1 (TCF12(var.2)); m=6/6; ncol2=11; w=11; offset=6; strand=D; shift=6; score=0.415931; ------ssCACCTGCys-- ; cor=; Ncor= a 0 0 0 0 0 0 13014.0 14835.0 955.0 52529.0 744.0 1913.0 1380.0 2819.0 1089.0 13867.0 11414.0 0 0 c 0 0 0 0 0 0 19393.0 17594.0 57848.0 2007.0 55598.0 55765.0 3886.0 2088.0 55061.0 17603.0 18154.0 0 0 g 0 0 0 0 0 0 16996.0 18560.0 1186.0 5607.0 3780.0 3536.0 2625.0 55922.0 2314.0 14293.0 20060.0 0 0 t 0 0 0 0 0 0 12473.0 10887.0 1887.0 1733.0 1754.0 662.0 53985.0 1047.0 3412.0 16113.0 12248.0 0 0