#NEXUS
Begin data;
	Dimensions ntax=12 nchar=607;
	Format datatype=dna gap=- interleave;
	Matrix


Aeg_spelt		TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGTCGGTGACGG-CACT
Aeg_tau			TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGTCGGTGACGG-CACT
Agro_cris		TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCTCCGGCGACGG-CATC
Aust_ret		TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGCCGGCGACGA-CATC
Crites[_viol]	TCGTGACCCTGACCAAAACAGACCGCGCTCGTGTCATCCAATCCGCCGGCGGTGG-CACC
Das_vil			TCGTGACCCTGACCAAAACAGACCGTGCACGTGTCATCCAACCCGTCGGCGACGG-C-CC
Hord_bulb		TCGTGACCCTGACCAAAACAGACCGTGCTAGCGTCATCCAATCCTCCGACGACGG-CATC
Pse_spic		TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGTCGGCGACGG-CACC
Sec_cer			TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGTCGGTGACGG-CACC
Sec_mon			TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGTCGGTGACGG-CACC
Thino_elon		TCGTGACCCTGACCAAAACAGACCGCGCACGCGTCATCCAATCCGTCGGCGACGG-CATC
Trit_mon		TCGTGACCCTGACCAAAACAGACCGTGCACGCGTCATCCAATCCGTCGGCGATGG-CATT


Aeg_spelt		GTCCGTCGCTCGGCCAAT--GCCTCGACCACCTCCCCTCCTCGGAGCGGGTGGTGGCTCG
Aeg_tau			GTCCGTCGCTCGGCCAAT--GCCTCGACCACCTCCCCTCCTCGGAGCGGGTGGTGGCTCG
Agro_cris		GTCTGTCGCTCGGCCAAT--TCCTCGACCACCTCCCCTCCTCGGAGTGGG----GGCTCG
Aust_ret		GTTCGTCGCTCGGCCAAG--TCCTCGACCACCTCCCCTCCTCGGAGCGGG----GGCTCG
Crites[_viol]	AACCGTCGCTCGGCCAAG--CCCTCGACCACCTCCACTCCTCGGA----GTGGGGGCTCG
Das_vil			GTCCGTCGCTCGGCCAAG--TCCTCGACCACCTCCCCTCCTCGGAGTGGGTGGGGGCTCG
Hord_bulb		GTCCGTCGCTCGGCCAA--TTCCTCGACCGCCTCCACTCCTAGGAGAGGG----GGCTCG
Pse_spic		GTCCGTCGCTCGGCCAAG--TCCTCGACCACCTCCCCTCCTCGGAGTGGGTGGGGGCTCG
Sec_cer			GTCCGTCGCTCGGCC--TATGCCTCGACCACCTCCCCTCCACGGAGTGGGTGGGGGCTCG
Sec_mon			GTCCGTCGCTCGGCC--TATGCCTCGACCACCTCCCCTCCACGGAGTGGGTGGGGGCTCG
Thino_elon		GTCTGTCGCTCGACCAAT--GCCCCGACCACCTCCCCTCCTTGGAGTGGGTGGGGGCTCG
Trit_mon		GTCCGTCGCTCGGCCAATATGCCTCGACCACCTCCCCTCCTTGGAGTGGGTGGGGGCTCG


Aeg_spelt		GGGTAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Aeg_tau			GGGTAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Agro_cris		GGGTAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Aust_ret		GGGTAAAAGAACC-ACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Crites[_viol]	GGGCAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACTCGGGGTCAT
Das_vil			GGGTAAAAGAACC-ACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Hord_bulb		GGGTAAAAGAACCCACGGCGCCGAACGCGTCAAGGAACACTGTGCCTAACCCGGGGGAAT
Pse_spic		GGGTAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Sec_cer			AGGCAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACACGGGGCCAT
Sec_mon			AGGCAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACACGGGGCCAT
Thino_elon		GGGTAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT
Trit_mon		GGGTAAAAGAACCCACGGCGCCGAAGGCGTCAAGGAACACTGTGCCTAACCCGGGGGCAT


Aeg_spelt		GGCTA-GCTTGCTAGCCGTCCCTTGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Aeg_tau			GGCTA-GCTTGCTAGCCGTCCCTTGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Agro_cris		GGCTA-GCTTGCTAGCCGTCCCCCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Aust_ret		GGCTA-GCTTGCTAGCCGTCCCCCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Crites[_viol]	GGCTA-GCTTGCTAGTCGTCCCTCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Das_vil			GGCCA-GCTTGCTAGCTGTCCCCCGTGTTGCAAAGCTATATAATCCACACGACTCTCGGC
Hord_bulb		GGCTA-GCTTGCTAATCATCCCTCGTGTTGCAAAGATATTTAATCCACACGACTCTCGGC
Pse_spic		GGCTA-GCTTGCTAGCCGTCCCCCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Sec_cer			GGCTA-GCTTGCTAGCTGTGACTCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Sec_mon			GGCTA-GCTTGCTAGCTGTGACTCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Thino_elon		GGCTA-GCTTGCTAGCCGTCCCTCGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC
Trit_mon		GGCTA-GCTTGCTAGCCATCCCTTGTGTTGCAAAGCTATTTAATCCACACGACTCTCGGC


Aeg_spelt		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Aeg_tau			AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Agro_cris		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Aust_ret		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Crites[_viol]	AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Das_vil			AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Hord_bulb		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Pse_spic		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Sec_cer			AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Sec_mon			AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Thino_elon		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA
Trit_mon		AACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACCTGGTGTGA


Aeg_spelt		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Aeg_tau			ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Agro_cris		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACCCGG
Aust_ret		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Crites[_viol]	ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Das_vil			ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Hord_bulb		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACCCGG
Pse_spic		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Sec_cer			ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Sec_mon			ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Thino_elon		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG
Trit_mon		ATTGCAGAATCCCGCGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCACTCGG


Aeg_spelt		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAACCACCCTCATCGGGA
Aeg_tau			CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAACCACCCTCATCGGGA
Agro_cris		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAACCCCCCTCATCGGGA
Aust_ret		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAACCCCC-TCATCGGGA
Crites[_viol]	CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCTCAACCACCCTCATTGGGA
Das_vil			CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCA---CCCCTCATCGGGT
Hord_bulb		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAACCACCCTCTTTAGGA
Pse_spic		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAATC-CCCTCATCGGGA
Sec_cer			CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCA-CACCCCTCATTGGGA
Sec_mon			CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCA-CACCCCTCATTGGGA
Thino_elon		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAAAC-CCCTCATCGGGA
Trit_mon		CCGAGGGCACGCCTGCCTGGGCGTCACGCCAAAACACGCTCCCAACC-CCCTCATCGGGA


Aeg_spelt		ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG
Aeg_tau			ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG
Agro_cris		ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG
Aust_ret		ATTGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG
Crites[_viol]	ATCGGGATGCGGCATATGGTCCCTCGTCCCGCAAGGGGCGGTGGGCCGAAGATCGGGCTG
Das_vil			ATCGGGATGCGGCATCTGGTTCCTCGTCTCGTAAGGGGCGGTGGACCGAAGATCGGGCTG
Hord_bulb		ATTGGGATGCGGCATATGGTCCCTCGTCCTACAAGGGGCGGTGGGCCGAAGATCGGGCTG
Pse_spic		ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG
Sec_cer			ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGTTCGGGCTG
Sec_mon			ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGTTCGGGCTG
Thino_elon		ATCGGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG
Trit_mon		ATCAGGATGCGGCATCTGGTCCCTCGTCTCGCAAGGGGCGGTGGACCGAAGATCGGGCTG


Aeg_spelt		CCGGTGTACCGCGCCGGACACAGCGCATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC
Aeg_tau			CCGGTGTACCGCGCCGGACACAGCGCATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC
Agro_cris		CCGGCGTACCGCGCCGGACACAGCGCATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC
Aust_ret		CCGGCGTACCGCGCCGGACACAGCGCATGGTGGGCGTCCTAGCTTTA-TCAACGCAGTGC
Crites[_viol]	CCGGTGCACCGCGTCGGACACAGCGCATGGTGGGCGTTCTTGCTTTA-TCAACGTAGTGC
Das_vil			CTGGCGTACCACGCCGGACACAGCACATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC
Hord_bulb		CCGGCGTACCACGCCAGACACAGCACATGGTGGGCGTCCTCGCTTTA-TCAATGCAGTGC
Pse_spic		CCGGCGTACCGCGCCGGACACAGCGCATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC
Sec_cer			CCGGCGTACCGTGTCAAACACAGCGCGTGGTGGGCGTCTTTGCTTTA-TCAACGCAGTGC
Sec_mon			CCGGCGTACCGTGTCAAACACAGCGCGTGGTGGGCGTCTTTGCTTTA-TCAACGCAGTGC
Thino_elon		CCGGCGTACCGCGTCGGACACAGCGCATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC
Trit_mon		CCGGCGTACCGCGCCGGACACAGCGCATGGTGGGCGTCCTCGCTTTA-TCAACGCAGTGC


Aeg_spelt		ATCCGACGCGCAGCCGACATTATGGCCTCAGAACGACCCAGCAAACGAAGCGCACGTCGC
Aeg_tau			ATCCGACGCGCAGCCGACATTATGGCCTCAGAACGACCCAGCAAACGAAGCGCACGTCGC
Agro_cris		ATCCGACGCGTAGCCGGCATGATGGCCTCAAAACGACCCAGCGAACGAAGCGCACGTCGC
Aust_ret		ATCCGACGCGCAGCCGGCATTATGGCCTCAAAACGACCCAGCGAACGAAGCGCACGTCGC
Crites[_viol]	ATCCGACGCATAGCCGGCGTGATGGCCCCTAAAGGACCCAGCAAACGAAGCGCACGTCGC
Das_vil			ATCCGACGTGTAGCCGGCATGATGGCCTCAAAATGACCCAGCTAACGAAGCGCACGTCGC
Hord_bulb		ATCTGGTGCGTAGACGGCATTATGGCCTCAAAATGACCCAGTGAACGAAGCCCACGTCGC
Pse_spic		ATCCGACGCGTAGCCGGCATGATGGCCTCAAAACGACCCAGCAAACGAAGCGCACGTCGC
Sec_cer			ATACGACGCGTAGCCGGCATGATGGCCTCAAAACGACCCAACAAACGTAGCGCACGTCGC
Sec_mon			ATACGACGCGTAGCCGGCATGATGGCCTCAAAACGACCCAACAAACGTAGCGCACGTCGC
Thino_elon		ATCCGACGCGCAGCCGGCATGATGGCCTCAAAACGACCCAGCAAACGAAGCGCACGTCGC
Trit_mon		ATCCGACGCGCAGCCGGCATGACGGCCTCAAAATGACCCAGCAAACGAAGCGCACGTCGC


Aeg_spelt		TTCGACC
Aeg_tau			TTCGACC
Agro_cris		TTCGACC
Aust_ret		TTCGACC
Crites[_viol]	TTCGACC
Das_vil			TTCGACC
Hord_bulb		TTCGACC
Pse_spic		TTCGACC
Sec_cer			TTCGACC
Sec_mon			TTCGACC
Thino_elon		TTCGACC
Trit_mon		TTCGACC

;

endblock;

begin assumptions;
	usertype nucleotide stepmatrix = 4 ACGT
		0 3 1 3
		3 0 3 1
		1 3 0 3
		3 1 3 0
		;
		
	endblock;