NEXUS
[File created by TreeBASE:  1/16/09  15:33:40]
[Matrix accession#: M3720]

BEGIN TAXA;
	TITLE M3720;
	DIMENSIONS  NTAX=28;
	TAXLABELS
		Geomys_breviceps	Orthogeomys_heterodus	Thomomys_bottae_awahnee_a	Thomomys_bottae_awahnee_b	Thomomys_bottae_xerophilus	Thomomys_bottae_cactophilus	Thomomys_bottae_albatus	Thomomys_bottae_ruidosae	Thomomys_bottae_bottae	Thomomys_bottae_alpinus	Thomomys_bottae_riparius	Thomomys_bottae_mewa	Thomomys_bottae_saxatilis	Thomomys_bottae_laticeps	Thomomys_bulbivorus	Thomomys_talpoides_ocius	Thomomys_idahoensis_pygmaeus_a	Thomomys_idahoensis_pygmaeus_b	Thomomys_mazama_mazama	Thomomys_mazama_nasicus	Thomomys_monticola_a	Thomomys_monticola_b	Thomomys_talpoides_yakimensis	Thomomys_talpoides_bridgeri	Thomomys_townsendii_townsendii	Thomomys_townsendii_relictus	Thomomys_umbrinus_chihuahuae	Thomomys_umbrinus_atroavarius
	;
END;

BEGIN CHARACTERS;
	TITLE M3720;
	DIMENSIONS NCHAR=553;
	FORMAT DATATYPE = DNA MISSING = ? GAP = - ;
	MATRIX
		Geomys_breviceps                     AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTCTTTCTCTT-----------------------GATATACTTTTGCTCATGAACCATCTTGTTATCGCTTTACCTGAACATTCCTAAGCAGGGAGGGTTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTAGGAAGATTTCTGACAGGAAACATTTCCTGTCTTTTCCTCTGAGAGCTTAAGAGTGTATAA-CTATTTTGTGCATGATATTGCACCAAACAAAAATGCCACATACTCGCATTGGGTGCAATGGAATCCTAGCTACTCTGGAAACTGAAATTGAGAGGACTGTGATTTGAGGTCATCTGGACAAACAGTTTATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTCTCATCCCAATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTAAGACAAAAATCATTGG----AAGCA
		Orthogeomys_heterodus                AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTCTTTCTCTC-----------------------GATATRCTTTTGCTCATGAACCATCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGGAGGGTTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTTTTTTCCTCTGAGGGCTTAAGTGTGTATAA-CTATTTTGTGCATGATATTGCAACAAACAAAAATGCCACATACTCGCACTGGGTACAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGACAAACAGTTTATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTCTCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTAAGACAAAAATCAT-GG----AAGCA
		Thomomys_bottae_awahnee_a            AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGRG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGYGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAACCGCTGG----ACGCA
		Thomomys_bottae_awahnee_b            AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGRG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTRGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGYGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAACCGCTGG----ACGCA
		Thomomys_bottae_xerophilus           AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCYSTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTRCACTGGGTGYAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAACAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_cactophilus          AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACRTACTTRCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAAYAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_albatus              AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCTGTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGTAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_ruidosae             AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTYTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACRTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGKTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_bottae               AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGAAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_alpinus              AATGCAATGGACCCACACCCACCACCTGTGAATACATATGTGATAGGTRTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCG---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAAGAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACKGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_riparius             AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCTSTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGYAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATSTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_mewa                 AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCYTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_bottae_saxatilis            AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAACCGCTGG----ACGCA
		Thomomys_bottae_laticeps             AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCYCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATKTTCCTATCATCCCGRTGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACKGAAGCAAAAACCGCTGG----ACGCA
		Thomomys_bulbivorus                  AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACRTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGACCTGGGAAGATTTCTGATAGGAAAACTTTCCTGTCTTTACCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACAKACTTGCACTGGGTGCAATGGAATCCTAACTACTCTGGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATTATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATARATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGGCTGGACGCA
		Thomomys_talpoides_ocius             ????????G-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCT------------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCACTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTCGCACTGGATGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTTTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCGGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCGCTGG----ACGCA
		Thomomys_idahoensis_pygmaeus_a       AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCACTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCGTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGATGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTTTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGATTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCGCTGG----ACGCA
		Thomomys_idahoensis_pygmaeus_b       AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTCGATATACTTTTGCTCATGAAACGGATATACTTTTGCTCATGAAACGTCTTGTTATCACTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGATGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTTTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGATTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCGCTGG----ACGCA
		Thomomys_mazama_mazama               ??TGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACAYTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAA?????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????
		Thomomys_mazama_nasicus              AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGATGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGACATCTGGGCGAACAGTTCATGAAATCTCTTCTTAACCAATACAGACTGGGTATGGTACCATGTTCCTATCGTCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCGGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ATGCA
		Thomomys_monticola_a                 AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATGTACTTTTGCTCATGAAACATCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTCGCACTGGATGCAGTGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTTTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCGCTGG----ACACA
		Thomomys_monticola_b                 AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTGTTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTCGCACTGGATGCAGTGGAATCCTAGCTACTCTGGAAGCTGAAACTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTTTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCACTGG----ACACA
		Thomomys_talpoides_yakimensis        AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCACTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGRAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTTTGAGGGCTTAAGTGTGTRGAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTCGCACTGGATGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCACGAAATCTCTTTTCAACCAATAAAGACTGGGTACAGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCGCTGG----ACGCA
		Thomomys_talpoides_bridgeri          AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATATACTTTTGCTCATGAAACGTCTTGTTATCACTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCGTCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTTCCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTCGCACTGGATGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGATTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTTTCAACCAATGAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTTAAAAGTAACTGAAGAAAAAATCGCTGG----ACGCA
		Thomomys_townsendii_townsendii       AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_townsendii_relictus         AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCCCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTGCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATAAATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ACGCA
		Thomomys_umbrinus_chihuahuae         AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTTGCACTGGGTKCAATGGAATCCT---------GGAAGCTGAAATTGAGAGGATTGTGGTTTGAGATCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATACATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCGCTGG----ATGCA
		Thomomys_umbrinus_atroavarius        AATGCAATG-ACCCACACCCACCACCTGTGAATACATATGTGATAGGTTTGCAAATGAATCTATTTCTCTC-----------------------GATACACTTTTGCTCATGAAACGTCTTGTTATCGCTTTACCTGAACATTGCTAAGCAGGG----TTTGCTGCCATCATCACTCTTCCTCTCTTTGAACTGGGAAGATTTCTGATAGGAAATCTTTCCTGTCTTTACCTCTGAGGGCTTAAGTGTGTATAAACTATTTTGTACGTGATATTGCACCAAACAAAAATGCCACATACTCGCACTGGGTGCAATGGAATCCTAGCTACTCTGGAAGCTGAAATTGAGAGGATTGTGGTTTGAGGTCATCTGGGCAAACAGTTCATGAAATCTCTTCTCAACCAATAAAGACTGGGTATGGTACCATGTTCCTATCATCCCGATGGTTCAGGAAGCATACATAGCTGATCTCATAGATGGTTCAAGCCTGTCTGGACAAAAA-TCAGGTCCTATTTTAAAAAGTAACTGAAGCAAAAATCACTGG----ATGCA
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 553 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

BEGIN ASSUMPTIONS;
OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS ; 
 END;