#NEXUS begin taxa; dimensions ntax=6; taxlabels 'S. oleracea cv America AP3 (E1 - 3UTR) CDS'[&Created=Mon Nov 18 14:24:53 EST 2013,Modified=Tue Feb 25 22:48:06 EST 2014,description="",Topology="linear","Molecule Type"="DNA"] 'B. nuttallianum AP3 (E1 - 3UTR) CDS'[&Created=Mon Nov 18 14:25:43 EST 2013,Modified=Thu Nov 19 21:28:11 EST 2015,description="",Topology="linear","Molecule Type"="DNA"] 'B. virgatum AP3 (E1 - 3UTR) CDS'[&Created=Mon Nov 18 14:25:25 EST 2013,Modified=Thu Nov 19 21:28:11 EST 2015,description="",Topology="linear","Molecule Type"="DNA"] 'B. bonus-henricus AP3 (E1 - E7) CDS'[&Created=Mon Nov 18 14:25:03 EST 2013,Modified=Thu Nov 19 21:28:11 EST 2015,description="",Topology="linear","Molecule Type"="DNA"] 'C. album AP3 Allele 1 (E1 - 3UTR) CDS'[&Created=Mon Nov 18 14:25:31 EST 2013,Modified=Tue Feb 25 22:48:18 EST 2014,description="",Topology="linear","Molecule Type"="DNA"] 'C. album AP3 Allele 2 (E1 - 3UTR) CDS'[&Created=Mon Nov 18 14:25:36 EST 2013,Modified=Tue Feb 25 22:48:22 EST 2014,description="",Topology="linear","Molecule Type"="DNA"] ; end; begin characters; dimensions nchar=654; format datatype=dna missing=? gap=- interleave=yes; matrix 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' AAAATCGAAAACAATACGAATCGTCAAGTTACTTATTCGAAGAGAAGGAACGGTCTGTTC 'B. nuttallianum AP3 (E1 - 3UTR) CDS' AAAATAGAGAACAGTACTAATAGACAAGTTACTTATTCTAAGAGAAGAAATGGGCTTTTT 'B. virgatum AP3 (E1 - 3UTR) CDS' AAAATAGAGAACAGTACTAATAGACAAGTTACTTATTCTAAGAGAAGAAATGGGCTTTTT 'B. bonus-henricus AP3 (E1 - E7) CDS' AAAATAGAAAACAGCACTAATAGACAAGTTACTTATTCTAAGAGAAGAAATGGGCTTTTT 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' AAAATAGAGAACCAAACTAATAGACAAGTTACTTATTCTAAGAGAAGAAATGGGCTTTTT 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' AAAATAGAGAACCAAACTAATAGACAAGTTACTTATTCTAAGAGAAGAAATGGGCTTTTT 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' AAGAAGGCGAACGAGCTTAGTGTTCTTTGCGACGCGACTGTTTCGATTGTCATGATCTCC 'B. nuttallianum AP3 (E1 - 3UTR) CDS' AAGAAGGCTACTGAACTTGCTGTTCTTTGTGATGCTACTGTTTCTATTGTCATGATTTCT 'B. virgatum AP3 (E1 - 3UTR) CDS' AAGAAGGCTACTGAACTTACTGTTCTTTGTGATGCTACTGTTTCTATTGTCATGGTTTCT 'B. bonus-henricus AP3 (E1 - E7) CDS' AAGAAGGCTAATGAACTTACTGTTCTTTGTGATGCTACTGTTTCTATTGTCATGATTTCT 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' AAGAAGGCTACTGAACTTGCTGTTCTTTGTGATGCTACTGTTTCTATTATTATGATTTCT 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' AAGAAGGCTACTGAACTTGCTGTTCTTTGTGATGCTACTGTTTCTATTATTATGATTTCT 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' AATTCCAACAAGCTCCACGAATTCCTCACCCCCGGAACCACCACGACGAAGGAGGTTTAC 'B. nuttallianum AP3 (E1 - 3UTR) CDS' AACTCTAATAGGATCCATGAGTTCACTAGCAACGGG---GCCACGCTGAAGCAGATTTAT 'B. virgatum AP3 (E1 - 3UTR) CDS' AACTCTAGTAAGCTCCATGAGTTCATTAGCCCCGGG---GCCACGACGAAGCAGATTTAT 'B. bonus-henricus AP3 (E1 - E7) CDS' AACTCTAGTAAGCTCCATGAGTTCCTTAGCCCCGGG---GCCACGACGAAGCAGATTTAT 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' AGCTCTAATAAGCTTCATGAACAGCATAGCCCCGGA---ATCACGCCCAAGCAGGTTTAT 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' AGCTCTAATAAGCTTCATGAACAGCATAGCCCCGGA---ATCACGCCCAAGCAGGTTTAT 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' GATAAATATCAGGCTGCTATGGGGGTTGATCTTTGGGCCAAACAATATCAGAAAATGCAA 'B. nuttallianum AP3 (E1 - 3UTR) CDS' GACAAGTACCAGGCGGCTATGAAAGTTGATCTATGGGTCAAGCAATATCAGAAAATGCAA 'B. virgatum AP3 (E1 - 3UTR) CDS' GACAAGTACCAGGCGGCTATGGGGGTTGATCTATGGGTCAAGCAATATCAGAAATTGCAA 'B. bonus-henricus AP3 (E1 - E7) CDS' GACAAGTATCAGGCGGCTATGGGGGTTGATCTATGGGTCAAGCAATATCAGAAAATGCAA 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' GATAAGTATCAGAGGGATAGAGAGGTTGATCTTTGGGCCAAACAATATCAGAACATGCAA 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' GATAAGTATCAGAGGGATAGAGAGGTTGATCTTTGGGCCAAACAATATCAGAACATGCAA 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' GAAGAGCTGCAGAAGTTGAATGATATAAATAGGGGTCTGCAAAAGGATATTAGGCGAAGG 'B. nuttallianum AP3 (E1 - 3UTR) CDS' GAAGATCTGCAGAAGTTGAATGAGATAAATAGGGGTCTTCAAAAGGATATCAGGCGGAGG 'B. virgatum AP3 (E1 - 3UTR) CDS' GAAGATCTGCAGAAGTTGAATGAGATAAATAGGGGTCTTCAAAAGGATATCAGGCGGAGG 'B. bonus-henricus AP3 (E1 - E7) CDS' GAAGATCTGCTGAAGYTGAATGAGATAAATAGGGGTCTTCAAAATGATATCAGGCGGAGG 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' AAACAGCTGCAGGATCTGAATGAGATAAATAGGGGGCTTCAAAAGGATATCAGGCGAAGA 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' AAACAGCTGCAGGATCTGAATGAGATAAATAGGGGGCTTCAAAAGGATATCAGGCGAAGA 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' ATGGGAGATTGTTTGGAGGATCTGACTTACCATGAATTGAGCTCTCTAAAGGAAGAAATG 'B. nuttallianum AP3 (E1 - 3UTR) CDS' ATGGGAGATTGTTTGGAGGACTTGACTTACAGTGAGTTGCGCTGTCTTAGGGAAGAGATG 'B. virgatum AP3 (E1 - 3UTR) CDS' ATGGGAGATTGTTTGGAGGACTTGACTTACAGTGAGTTGTGCTGTCTTAAGGAAGAGATG 'B. bonus-henricus AP3 (E1 - E7) CDS' ATGGGAGATTGTTTGGAGGACTTGACTTACAGTGAGTTATGCTGTCTTAAGGAAGAGATG 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' ATGGGAGATTGTTTGGAGGATTTGGCTATTGATGAATTGCGCTGTCTTGAAGATGAGATG 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' ATGGGAGATTGTTTGGAGGATTTGGCTATTGATGAATTGCGCTGTCTTGAAGATGAGATG 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' GTGAACTCTGTGAAGGTCATTCGTGAACGCAAGGCTAAGAAGATTGAGAATCATATTGAT 'B. nuttallianum AP3 (E1 - 3UTR) CDS' GTGAACTCTGTGAACGTCATTCGTGAACAAAAGACTAAGAAGCTTGAACGTCAAATTGAT 'B. virgatum AP3 (E1 - 3UTR) CDS' GTGAACTCTGTGAAGGTCATTCGTGGACTAAGGATTAAGAAGATTGAACGTCAAATTGAT 'B. bonus-henricus AP3 (E1 - E7) CDS' GTGAACTCTGTGAAGGTCATTCGTGAACAAAAGATTAAGAAGATTGAACGTCAAATTGAT 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' GTGAATGCTGTGAAGGTCATTCGTGAACGCAAGACTAAGAAGATTGACAATAATATTGAC 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' GTGAATGCTGTGAAGGTCATTCGTGAACGCAAGACTAAGAAGATTGACAATAATATTGAC 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' ACTACGAAGAAAAAGGTGCGAAATTGTAACGAAGTACACAAGAGCCTCCTCCAAGCATTT 'B. nuttallianum AP3 (E1 - 3UTR) CDS' AATACGAAGAAAAAGGTGCGAAATTGCGATGCCATACATACCAGCCTCCGCCAAGCATTT 'B. virgatum AP3 (E1 - 3UTR) CDS' AATACGAAGAAAAAGATGCGAAATTCCGATGCCATACATACCAGCCTCCGCCAAGCATTT 'B. bonus-henricus AP3 (E1 - E7) CDS' ACTACGAAGAAAAAGATGCGAAATTGCCAAGCCATACATAGCAGCCTTCTCCAAGCATTT 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' ACTTCGAAGAAAAAGGTGCGAAATTCTCAAGAAATACACAGGAGTCTCCTCCAAGAATTT 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' ACTTCGAAGAAAAAGGTGCGAAATTCTCAAGAAATACACAGGAGTCTCCTCCAAGAATTT 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' GATATTCCAAAAGATGAACCGCAGTATGGACTGGTTGATAACGGGGAGTACAACCATGTG 'B. nuttallianum AP3 (E1 - 3UTR) CDS' GATATTCTGAAGGATGAACCGCATTATGGACTGGTTGATAACGGGGATTACAACCATGTG 'B. virgatum AP3 (E1 - 3UTR) CDS' GATATTATGAAGGATGAACCGCAGTATGGACTGGTTGATAACCGGGACTACAACCATGTG 'B. bonus-henricus AP3 (E1 - E7) CDS' GATATTCCGAAGGATGAACCRCAGTATGGACTGGTTGATAACGGGGATTACAACCATGTG 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' GATATTCCGAAGGAGGAATCACAGTATGGATTGGTTGATAATGGGGAGTACAATCATGTG 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' GATATTCCGAAGGAGGAATCACAGTATGGATTGGTTGATAATGGGGAGTACAATCATGTG 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' CTTGGATATAACGATGACTCTCGCATACTTGCTTTGCGATTGCAGCCATGTC-------- 'B. nuttallianum AP3 (E1 - 3UTR) CDS' CTTGGATATAACGACGACTCTCGTATACTTGCTTTGCGGTTGCAGCCATGTCAGCCTAGT 'B. virgatum AP3 (E1 - 3UTR) CDS' CTTGGATATAACGACGACTCTCGTATACTTGCTTTGCGGTTGCAGCCATGTCAGCCTAGC 'B. bonus-henricus AP3 (E1 - E7) CDS' CTTGGATATAACGACGACTCTCGCATACTTGCTTTGC----------------------- 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' CTTGGATATAACGATGACAATCGTATACTTGCTTTGCGCTTGCAGCCGTGTCAGCCTAAT 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' CTTGGATATAACGATGACAATCGTATACTTGCTTTGCGCTTGCAGCCGTGTCAGCCTAAT 'S. oleracea cv America AP3 (E1 - 3UTR) CDS' --TGATGCTGGTGCAGGATCATG--------------------------TGTAA 'B. nuttallianum AP3 (E1 - 3UTR) CDS' CTTCATGCTGGTGCAGGATTGGGGTCATGTGTAGCAACTTACACATTGCTTTGA 'B. virgatum AP3 (E1 - 3UTR) CDS' CTTCATGCTGGTGCAGGATCGGGGTCATGTGTAACAACTTACACATTGCTTTGA 'B. bonus-henricus AP3 (E1 - E7) CDS' ------------------------------------------------------ 'C. album AP3 Allele 1 (E1 - 3UTR) CDS' CTTCATGCTGGTGCAGGGTCAGGATCATGTGTTACAACTTACACATTGCTTTGA 'C. album AP3 Allele 2 (E1 - 3UTR) CDS' CTTCATGCTGGTGCAGGGTCAGGATCATGTGTTACAACTTACACATTGCTTTGA ; end;