One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m34/peak-motifs_oligos_8nt_mkv6_m34.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_8nt_mkv6_m34/peak-motifs_oligos_8nt_mkv6_m34_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m34_shift1 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv6_m34_shift1 (oligos_8nt_mkv6_m34oligos_8nt_mkv6_m34)
; oligos_8nt_mkv6_m34 (oligos_8nt_mkv6_m34oligos_8nt_mkv6_m34); m=0 (reference); ncol1=12; shift=1; ncol=13; -grAAGCTGTGgs ; Alignment reference a 0 262 338 1299 1258 52 45 5 48 3 60 320 232 c 0 323 255 2 56 31 1217 79 13 38 53 286 413 g 0 477 454 4 5 1202 35 63 1241 6 1186 434 398 t 0 270 285 27 13 47 35 1185 30 1285 33 292 289

MA1619.1_rc_shift0 (Ptf1a(var.2)_rc)
; oligos_8nt_mkv6_m34 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=1/5; ncol2=12; w=11; offset=-1; strand=R; shift=0; score=0.599738; rmaCAGCTGtky- ; cor=; Ncor= a 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 c 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 g 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 t 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

MA1641.1_rc_shift0 (MYF5_rc)
; oligos_8nt_mkv6_m34 versus MA1641.1_rc (MYF5_rc); m=2/5; ncol2=12; w=11; offset=-1; strand=R; shift=0; score=0.595516; gvaCAGCTGtbc- ; cor=; Ncor= a 2697.0 3507.0 7489.0 95.0 10966.0 100.0 222.0 129.0 43.0 578.0 1572.0 2554.0 0 c 2701.0 2985.0 1368.0 10912.0 47.0 230.0 10658.0 69.0 161.0 1774.0 3145.0 3258.0 0 g 3258.0 3146.0 1775.0 161.0 68.0 10657.0 230.0 47.0 10911.0 1368.0 2986.0 2700.0 0 t 2554.0 1572.0 578.0 42.0 129.0 223.0 100.0 10965.0 95.0 7490.0 3507.0 2698.0 0

MA0803.1_shift4 (TBX15)
; oligos_8nt_mkv6_m34 versus MA0803.1 (TBX15); m=3/5; ncol2=8; w=8; offset=3; strand=D; shift=4; score=0.492538; ----AGGTGTGA- ; cor=; Ncor= a 0 0 0 0 10502.0 458.0 19.0 61.0 0.0 140.0 44.0 10502.0 0 c 0 0 0 0 74.0 101.0 7.0 175.0 8.0 435.0 454.0 71.0 0 g 0 0 0 0 664.0 10502.0 10502.0 245.0 10502.0 324.0 10502.0 306.0 0 t 0 0 0 0 112.0 103.0 0.0 10502.0 0.0 10502.0 937.0 96.0 0

MA0805.1_shift4 (TBX1)
; oligos_8nt_mkv6_m34 versus MA0805.1 (TBX1); m=4/5; ncol2=8; w=8; offset=3; strand=D; shift=4; score=0.479657; ----AGGTGTGA- ; cor=; Ncor= a 0 0 0 0 11931.0 1560.0 0.0 28.0 0.0 142.0 141.0 11931.0 0 c 0 0 0 0 113.0 711.0 0.0 214.0 5.0 613.0 720.0 33.0 0 g 0 0 0 0 1007.0 11931.0 11931.0 141.0 11931.0 109.0 11931.0 18.0 0 t 0 0 0 0 564.0 669.0 0.0 11931.0 0.0 11931.0 1039.0 0.0 0

MA0164.1_shift2 (Nr2e3)
; oligos_8nt_mkv6_m34 versus MA0164.1 (Nr2e3); m=5/5; ncol2=7; w=7; offset=1; strand=D; shift=2; score=0.44028; --cAAGCTT---- ; cor=; Ncor= a 0 0 4.0 23.0 23.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 12.0 0.0 0.0 1.0 23.0 0.0 0.0 0 0 0 0 g 0 0 2.0 0.0 0.0 22.0 0.0 0.0 0.0 0 0 0 0 t 0 0 5.0 0.0 0.0 0.0 0.0 23.0 23.0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv6_m34_shift1 (oligos_8nt_mkv6_m34oligos_8nt_mkv6_m34)				; oligos_8nt_mkv6_m34 (oligos_8nt_mkv6_m34oligos_8nt_mkv6_m34); m=0 (reference); ncol1=12; shift=1; ncol=13; -grAAGCTGTGgs ; Alignment reference a 0 262 338 1299 1258 52 45 5 48 3 60 320 232 c 0 323 255 2 56 31 1217 79 13 38 53 286 413 g 0 477 454 4 5 1202 35 63 1241 6 1186 434 398 t 0 270 285 27 13 47 35 1185 30 1285 33 292 289
MA1619.1_rc_shift0 (Ptf1a(var.2)_rc)				; oligos_8nt_mkv6_m34 versus MA1619.1_rc (Ptf1a(var.2)_rc); m=1/5; ncol2=12; w=11; offset=-1; strand=R; shift=0; score=0.599738; rmaCAGCTGtky- ; cor=; Ncor= a 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 c 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 g 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 t 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
MA1641.1_rc_shift0 (MYF5_rc)				; oligos_8nt_mkv6_m34 versus MA1641.1_rc (MYF5_rc); m=2/5; ncol2=12; w=11; offset=-1; strand=R; shift=0; score=0.595516; gvaCAGCTGtbc- ; cor=; Ncor= a 2697.0 3507.0 7489.0 95.0 10966.0 100.0 222.0 129.0 43.0 578.0 1572.0 2554.0 0 c 2701.0 2985.0 1368.0 10912.0 47.0 230.0 10658.0 69.0 161.0 1774.0 3145.0 3258.0 0 g 3258.0 3146.0 1775.0 161.0 68.0 10657.0 230.0 47.0 10911.0 1368.0 2986.0 2700.0 0 t 2554.0 1572.0 578.0 42.0 129.0 223.0 100.0 10965.0 95.0 7490.0 3507.0 2698.0 0
MA0803.1_shift4 (TBX15)				; oligos_8nt_mkv6_m34 versus MA0803.1 (TBX15); m=3/5; ncol2=8; w=8; offset=3; strand=D; shift=4; score=0.492538; ----AGGTGTGA- ; cor=; Ncor= a 0 0 0 0 10502.0 458.0 19.0 61.0 0.0 140.0 44.0 10502.0 0 c 0 0 0 0 74.0 101.0 7.0 175.0 8.0 435.0 454.0 71.0 0 g 0 0 0 0 664.0 10502.0 10502.0 245.0 10502.0 324.0 10502.0 306.0 0 t 0 0 0 0 112.0 103.0 0.0 10502.0 0.0 10502.0 937.0 96.0 0
MA0805.1_shift4 (TBX1)				; oligos_8nt_mkv6_m34 versus MA0805.1 (TBX1); m=4/5; ncol2=8; w=8; offset=3; strand=D; shift=4; score=0.479657; ----AGGTGTGA- ; cor=; Ncor= a 0 0 0 0 11931.0 1560.0 0.0 28.0 0.0 142.0 141.0 11931.0 0 c 0 0 0 0 113.0 711.0 0.0 214.0 5.0 613.0 720.0 33.0 0 g 0 0 0 0 1007.0 11931.0 11931.0 141.0 11931.0 109.0 11931.0 18.0 0 t 0 0 0 0 564.0 669.0 0.0 11931.0 0.0 11931.0 1039.0 0.0 0
MA0164.1_shift2 (Nr2e3)				; oligos_8nt_mkv6_m34 versus MA0164.1 (Nr2e3); m=5/5; ncol2=7; w=7; offset=1; strand=D; shift=2; score=0.44028; --cAAGCTT---- ; cor=; Ncor= a 0 0 4.0 23.0 23.0 0.0 0.0 0.0 0.0 0 0 0 0 c 0 0 12.0 0.0 0.0 1.0 23.0 0.0 0.0 0 0 0 0 g 0 0 2.0 0.0 0.0 22.0 0.0 0.0 0.0 0 0 0 0 t 0 0 5.0 0.0 0.0 0.0 0.0 23.0 23.0 0 0 0 0