One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_7nt_mkv5_m26/peak-motifs_oligos_7nt_mkv5_m26.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_m26/peak-motifs_oligos_7nt_mkv5_m26_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m26_shift3 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m26_shift3 (oligos_7nt_mkv5_m26oligos_7nt_mkv5_m26)
; oligos_7nt_mkv5_m26 (oligos_7nt_mkv5_m26oligos_7nt_mkv5_m26); m=0 (reference); ncol1=11; shift=3; ncol=19; ---skGACCTGAss----- ; Alignment reference a 0 0 0 220 238 2 1007 5 1 0 12 1007 199 248 0 0 0 0 0 c 0 0 0 304 161 0 0 994 936 33 1 0 296 286 0 0 0 0 0 g 0 0 0 332 336 1002 0 0 67 49 977 0 350 290 0 0 0 0 0 t 0 0 0 151 272 3 0 8 3 925 17 0 162 183 0 0 0 0 0

MA1118.1_shift3 (SIX1)
; oligos_7nt_mkv5_m26 versus MA1118.1 (SIX1); m=1/6; ncol2=11; w=11; offset=0; strand=D; shift=3; score=0.732267; ---GwAACCTGAkm----- ; cor=; Ncor= a 0 0 0 96.0 400.0 1049.0 1076.0 43.0 112.0 51.0 48.0 1070.0 146.0 546.0 0 0 0 0 0 c 0 0 0 43.0 77.0 18.0 8.0 959.0 871.0 46.0 9.0 7.0 179.0 360.0 0 0 0 0 0 g 0 0 0 859.0 90.0 6.0 10.0 12.0 31.0 30.0 1025.0 11.0 289.0 73.0 0 0 0 0 0 t 0 0 0 110.0 541.0 35.0 14.0 94.0 94.0 981.0 26.0 20.0 494.0 129.0 0 0 0 0 0

MA1536.1_rc_shift3 (NR2C2(var.2)_rc)
; oligos_7nt_mkv5_m26 versus MA1536.1_rc (NR2C2(var.2)_rc); m=2/6; ncol2=8; w=8; offset=0; strand=R; shift=3; score=0.546455; ---dYGACCyy-------- ; cor=; Ncor= a 0 0 0 5122.0 0.0 4406.0 18628.0 4790.0 1341.0 0.0 2861.0 0 0 0 0 0 0 0 0 c 0 0 0 3684.0 6639.0 1643.0 1588.0 18628.0 18628.0 8395.0 6420.0 0 0 0 0 0 0 0 0 g 0 0 0 4757.0 0.0 18628.0 0.0 0.0 236.0 719.0 3111.0 0 0 0 0 0 0 0 0 t 0 0 0 5065.0 18628.0 0.0 0.0 0.0 0.0 10232.0 6236.0 0 0 0 0 0 0 0 0

MA0160.1_rc_shift3 (NR4A2_rc)
; oligos_7nt_mkv5_m26 versus MA0160.1_rc (NR4A2_rc); m=3/6; ncol2=8; w=8; offset=0; strand=R; shift=3; score=0.513348; ---gTGACCTt-------- ; cor=; Ncor= a 0 0 0 0.0 0.0 1.0 10.0 0.0 1.0 0.0 1.0 0 0 0 0 0 0 0 0 c 0 0 0 2.0 0.0 0.0 0.0 11.0 13.0 1.0 3.0 0 0 0 0 0 0 0 0 g 0 0 0 8.0 0.0 13.0 2.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 0 0 t 0 0 0 3.0 14.0 0.0 2.0 3.0 0.0 13.0 8.0 0 0 0 0 0 0 0 0

MA1576.1_shift3 (THRB(var.3))
; oligos_7nt_mkv5_m26 versus MA1576.1 (THRB(var.3)); m=4/6; ncol2=19; w=11; offset=0; strand=D; shift=3; score=0.437292; ---rTGACCTyacrTGACC ; cor=; Ncor= a 0 0 0 119.0 0.0 28.0 389.0 0.0 0.0 13.0 11.0 263.0 42.0 102.0 0.0 0.0 389.0 0.0 7.0 c 0 0 0 31.0 8.0 89.0 19.0 389.0 389.0 75.0 134.0 28.0 221.0 86.0 0.0 0.0 11.0 389.0 389.0 g 0 0 0 157.0 0.0 389.0 17.0 4.0 59.0 38.0 93.0 89.0 71.0 205.0 6.0 389.0 0.0 0.0 3.0 t 0 0 0 82.0 381.0 45.0 71.0 17.0 20.0 389.0 151.0 9.0 54.0 0.0 393.0 3.0 86.0 2.0 4.0

MA1575.1_rc_shift3 (THRB(var.2)_rc)
; oligos_7nt_mkv5_m26 versus MA1575.1_rc (THRB(var.2)_rc); m=5/6; ncol2=19; w=11; offset=0; strand=R; shift=3; score=0.428032; ---gTGwCCTyrdyrAGGw ; cor=; Ncor= a 0 0 0 1017.0 5.0 291.0 4111.0 30.0 0.0 2.0 251.0 2470.0 1079.0 63.0 1441.0 4111.0 8.0 0.0 1787.0 c 0 0 0 610.0 629.0 686.0 303.0 4111.0 4111.0 1233.0 1488.0 312.0 939.0 1353.0 872.0 77.0 2.0 2.0 432.0 g 0 0 0 1649.0 5.0 4111.0 470.0 0.0 3.0 106.0 904.0 1266.0 1033.0 241.0 1512.0 1178.0 4111.0 4111.0 351.0 t 0 0 0 835.0 4111.0 199.0 1688.0 0.0 0.0 4111.0 1469.0 63.0 1060.0 2454.0 286.0 0.0 1.0 29.0 4111.0

MA1110.1_shift0 (NR1H4)
; oligos_7nt_mkv5_m26 versus MA1110.1 (NR1H4); m=6/6; ncol2=11; w=8; offset=-3; strand=D; shift=0; score=0.40447; tcAATGACCyh-------- ; cor=; Ncor= a 76.0 68.0 461.0 413.0 3.0 24.0 455.0 26.0 12.0 72.0 135.0 0 0 0 0 0 0 0 0 c 83.0 240.0 10.0 28.0 15.0 7.0 22.0 468.0 476.0 135.0 131.0 0 0 0 0 0 0 0 0 g 117.0 87.0 12.0 36.0 6.0 462.0 14.0 0.0 6.0 81.0 105.0 0 0 0 0 0 0 0 0 t 229.0 110.0 22.0 28.0 481.0 12.0 14.0 11.0 11.0 217.0 134.0 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m26_shift3 (oligos_7nt_mkv5_m26oligos_7nt_mkv5_m26)				; oligos_7nt_mkv5_m26 (oligos_7nt_mkv5_m26oligos_7nt_mkv5_m26); m=0 (reference); ncol1=11; shift=3; ncol=19; ---skGACCTGAss----- ; Alignment reference a 0 0 0 220 238 2 1007 5 1 0 12 1007 199 248 0 0 0 0 0 c 0 0 0 304 161 0 0 994 936 33 1 0 296 286 0 0 0 0 0 g 0 0 0 332 336 1002 0 0 67 49 977 0 350 290 0 0 0 0 0 t 0 0 0 151 272 3 0 8 3 925 17 0 162 183 0 0 0 0 0
MA1118.1_shift3 (SIX1)				; oligos_7nt_mkv5_m26 versus MA1118.1 (SIX1); m=1/6; ncol2=11; w=11; offset=0; strand=D; shift=3; score=0.732267; ---GwAACCTGAkm----- ; cor=; Ncor= a 0 0 0 96.0 400.0 1049.0 1076.0 43.0 112.0 51.0 48.0 1070.0 146.0 546.0 0 0 0 0 0 c 0 0 0 43.0 77.0 18.0 8.0 959.0 871.0 46.0 9.0 7.0 179.0 360.0 0 0 0 0 0 g 0 0 0 859.0 90.0 6.0 10.0 12.0 31.0 30.0 1025.0 11.0 289.0 73.0 0 0 0 0 0 t 0 0 0 110.0 541.0 35.0 14.0 94.0 94.0 981.0 26.0 20.0 494.0 129.0 0 0 0 0 0
MA1536.1_rc_shift3 (NR2C2(var.2)_rc)				; oligos_7nt_mkv5_m26 versus MA1536.1_rc (NR2C2(var.2)_rc); m=2/6; ncol2=8; w=8; offset=0; strand=R; shift=3; score=0.546455; ---dYGACCyy-------- ; cor=; Ncor= a 0 0 0 5122.0 0.0 4406.0 18628.0 4790.0 1341.0 0.0 2861.0 0 0 0 0 0 0 0 0 c 0 0 0 3684.0 6639.0 1643.0 1588.0 18628.0 18628.0 8395.0 6420.0 0 0 0 0 0 0 0 0 g 0 0 0 4757.0 0.0 18628.0 0.0 0.0 236.0 719.0 3111.0 0 0 0 0 0 0 0 0 t 0 0 0 5065.0 18628.0 0.0 0.0 0.0 0.0 10232.0 6236.0 0 0 0 0 0 0 0 0
MA0160.1_rc_shift3 (NR4A2_rc)				; oligos_7nt_mkv5_m26 versus MA0160.1_rc (NR4A2_rc); m=3/6; ncol2=8; w=8; offset=0; strand=R; shift=3; score=0.513348; ---gTGACCTt-------- ; cor=; Ncor= a 0 0 0 0.0 0.0 1.0 10.0 0.0 1.0 0.0 1.0 0 0 0 0 0 0 0 0 c 0 0 0 2.0 0.0 0.0 0.0 11.0 13.0 1.0 3.0 0 0 0 0 0 0 0 0 g 0 0 0 8.0 0.0 13.0 2.0 0.0 0.0 0.0 1.0 0 0 0 0 0 0 0 0 t 0 0 0 3.0 14.0 0.0 2.0 3.0 0.0 13.0 8.0 0 0 0 0 0 0 0 0
MA1576.1_shift3 (THRB(var.3))				; oligos_7nt_mkv5_m26 versus MA1576.1 (THRB(var.3)); m=4/6; ncol2=19; w=11; offset=0; strand=D; shift=3; score=0.437292; ---rTGACCTyacrTGACC ; cor=; Ncor= a 0 0 0 119.0 0.0 28.0 389.0 0.0 0.0 13.0 11.0 263.0 42.0 102.0 0.0 0.0 389.0 0.0 7.0 c 0 0 0 31.0 8.0 89.0 19.0 389.0 389.0 75.0 134.0 28.0 221.0 86.0 0.0 0.0 11.0 389.0 389.0 g 0 0 0 157.0 0.0 389.0 17.0 4.0 59.0 38.0 93.0 89.0 71.0 205.0 6.0 389.0 0.0 0.0 3.0 t 0 0 0 82.0 381.0 45.0 71.0 17.0 20.0 389.0 151.0 9.0 54.0 0.0 393.0 3.0 86.0 2.0 4.0
MA1575.1_rc_shift3 (THRB(var.2)_rc)				; oligos_7nt_mkv5_m26 versus MA1575.1_rc (THRB(var.2)_rc); m=5/6; ncol2=19; w=11; offset=0; strand=R; shift=3; score=0.428032; ---gTGwCCTyrdyrAGGw ; cor=; Ncor= a 0 0 0 1017.0 5.0 291.0 4111.0 30.0 0.0 2.0 251.0 2470.0 1079.0 63.0 1441.0 4111.0 8.0 0.0 1787.0 c 0 0 0 610.0 629.0 686.0 303.0 4111.0 4111.0 1233.0 1488.0 312.0 939.0 1353.0 872.0 77.0 2.0 2.0 432.0 g 0 0 0 1649.0 5.0 4111.0 470.0 0.0 3.0 106.0 904.0 1266.0 1033.0 241.0 1512.0 1178.0 4111.0 4111.0 351.0 t 0 0 0 835.0 4111.0 199.0 1688.0 0.0 0.0 4111.0 1469.0 63.0 1060.0 2454.0 286.0 0.0 1.0 29.0 4111.0
MA1110.1_shift0 (NR1H4)				; oligos_7nt_mkv5_m26 versus MA1110.1 (NR1H4); m=6/6; ncol2=11; w=8; offset=-3; strand=D; shift=0; score=0.40447; tcAATGACCyh-------- ; cor=; Ncor= a 76.0 68.0 461.0 413.0 3.0 24.0 455.0 26.0 12.0 72.0 135.0 0 0 0 0 0 0 0 0 c 83.0 240.0 10.0 28.0 15.0 7.0 22.0 468.0 476.0 135.0 131.0 0 0 0 0 0 0 0 0 g 117.0 87.0 12.0 36.0 6.0 462.0 14.0 0.0 6.0 81.0 105.0 0 0 0 0 0 0 0 0 t 229.0 110.0 22.0 28.0 481.0 12.0 14.0 11.0 11.0 217.0 134.0 0 0 0 0 0 0 0 0