One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/oligos_8nt_mkv6_m49/peak-motifs_oligos_8nt_mkv6_m49.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_m49/peak-motifs_oligos_8nt_mkv6_m49_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: oligos_8nt_mkv6_m49_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_8nt_mkv6_m49_shift1 (oligos_8nt_mkv6_m49oligos_8nt_mkv6_m49)
; oligos_8nt_mkv6_m49 (oligos_8nt_mkv6_m49oligos_8nt_mkv6_m49); m=0 (reference); ncol1=12; shift=1; ncol=17; -srGAGCTGTArc---- ; Alignment reference a 0 289 398 60 1283 91 55 29 49 5 1415 393 318 0 0 0 0 c 0 421 281 223 54 56 1262 44 45 8 15 330 430 0 0 0 0 g 0 510 484 1083 85 1238 54 48 1309 15 4 441 359 0 0 0 0 t 0 229 286 83 27 64 78 1328 46 1421 15 285 342 0 0 0 0

MA1641.1_rc_shift0 (MYF5_rc)
; oligos_8nt_mkv6_m49 versus MA1641.1_rc (MYF5_rc); m=1/3; ncol2=12; w=11; offset=-1; strand=R; shift=0; score=0.607979; 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 0 0 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 0 0 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 0 0 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 0 0 0 0

MA1619.1_shift0 (Ptf1a(var.2))
; oligos_8nt_mkv6_m49 versus MA1619.1 (Ptf1a(var.2)); m=2/3; ncol2=12; w=11; offset=-1; strand=D; shift=0; score=0.605007; rmaCAGCTGtky----- ; cor=; Ncor= a 1869.0 1978.0 4346.0 49.0 7119.0 34.0 224.0 26.0 27.0 535.0 1221.0 1602.0 0 0 0 0 0 c 1803.0 2430.0 1070.0 7149.0 41.0 307.0 6697.0 66.0 27.0 1312.0 1632.0 1977.0 0 0 0 0 0 g 1974.0 1629.0 1308.0 28.0 65.0 6689.0 299.0 40.0 7150.0 1065.0 2426.0 1803.0 0 0 0 0 0 t 1607.0 1216.0 529.0 27.0 28.0 223.0 33.0 7121.0 49.0 4341.0 1974.0 1871.0 0 0 0 0 0

MA0629.1_shift0 (Rhox11)
; oligos_8nt_mkv6_m49 versus MA0629.1 (Rhox11); m=3/3; ncol2=17; w=12; offset=-1; strand=D; shift=0; score=0.516698; amkmyGCTGTwAwrsrw ; cor=; Ncor= a 54.0 33.0 17.0 30.0 13.0 3.0 9.0 1.0 4.0 1.0 56.0 78.0 52.0 31.0 24.0 31.0 41.0 c 13.0 28.0 11.0 28.0 56.0 1.0 76.0 0.0 0.0 1.0 0.0 4.0 10.0 11.0 36.0 16.0 13.0 g 15.0 23.0 38.0 23.0 6.0 95.0 15.0 1.0 94.0 0.0 0.0 3.0 1.0 33.0 28.0 43.0 10.0 t 18.0 17.0 33.0 19.0 25.0 1.0 0.0 99.0 2.0 99.0 43.0 15.0 36.0 24.0 12.0 10.0 35.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_8nt_mkv6_m49_shift1 (oligos_8nt_mkv6_m49oligos_8nt_mkv6_m49)				; oligos_8nt_mkv6_m49 (oligos_8nt_mkv6_m49oligos_8nt_mkv6_m49); m=0 (reference); ncol1=12; shift=1; ncol=17; -srGAGCTGTArc---- ; Alignment reference a 0 289 398 60 1283 91 55 29 49 5 1415 393 318 0 0 0 0 c 0 421 281 223 54 56 1262 44 45 8 15 330 430 0 0 0 0 g 0 510 484 1083 85 1238 54 48 1309 15 4 441 359 0 0 0 0 t 0 229 286 83 27 64 78 1328 46 1421 15 285 342 0 0 0 0
MA1641.1_rc_shift0 (MYF5_rc)				; oligos_8nt_mkv6_m49 versus MA1641.1_rc (MYF5_rc); m=1/3; ncol2=12; w=11; offset=-1; strand=R; shift=0; score=0.607979; 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 0 0 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 0 0 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 0 0 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 0 0 0 0
MA1619.1_shift0 (Ptf1a(var.2))				; oligos_8nt_mkv6_m49 versus MA1619.1 (Ptf1a(var.2)); m=2/3; ncol2=12; w=11; offset=-1; strand=D; shift=0; score=0.605007; rmaCAGCTGtky----- ; cor=; Ncor= a 1869.0 1978.0 4346.0 49.0 7119.0 34.0 224.0 26.0 27.0 535.0 1221.0 1602.0 0 0 0 0 0 c 1803.0 2430.0 1070.0 7149.0 41.0 307.0 6697.0 66.0 27.0 1312.0 1632.0 1977.0 0 0 0 0 0 g 1974.0 1629.0 1308.0 28.0 65.0 6689.0 299.0 40.0 7150.0 1065.0 2426.0 1803.0 0 0 0 0 0 t 1607.0 1216.0 529.0 27.0 28.0 223.0 33.0 7121.0 49.0 4341.0 1974.0 1871.0 0 0 0 0 0
MA0629.1_shift0 (Rhox11)				; oligos_8nt_mkv6_m49 versus MA0629.1 (Rhox11); m=3/3; ncol2=17; w=12; offset=-1; strand=D; shift=0; score=0.516698; amkmyGCTGTwAwrsrw ; cor=; Ncor= a 54.0 33.0 17.0 30.0 13.0 3.0 9.0 1.0 4.0 1.0 56.0 78.0 52.0 31.0 24.0 31.0 41.0 c 13.0 28.0 11.0 28.0 56.0 1.0 76.0 0.0 0.0 1.0 0.0 4.0 10.0 11.0 36.0 16.0 13.0 g 15.0 23.0 38.0 23.0 6.0 95.0 15.0 1.0 94.0 0.0 0.0 3.0 1.0 33.0 28.0 43.0 10.0 t 18.0 17.0 33.0 19.0 25.0 1.0 0.0 99.0 2.0 99.0 43.0 15.0 36.0 24.0 12.0 10.0 35.0