NEXUS
[File created by TreeBASE:  1/16/09  15:37:15]
[Matrix accession#: M4052]

BEGIN TAXA;
	TITLE M4052;
	DIMENSIONS  NTAX=41;
	TAXLABELS
		Chasmanthium_latifolium	Zea_mays	Sacciolepis_vilvoides	Panicum_repens	Urochloa_panicoides	Ixophorus_unisetus	Paspalidium_geminatum	Pseudoraphis_paradoxa	Setaria_sulcata	Setaria_lachnea	Stenotaphrum_secundatum	Pennisetum_alopecuroides	Pennisetum_chilense	Pennisetum_clandestinum	Pennisetum_flaccidum	Pennisetum_frutescens	Pennisetum_glaucum	Pennisetum_lanatum	Pennisetum_latifolium	Pennisetum_macrourum	Pennisetum_montanum_Morrone_sn	Pennisetum_montanum_Morrone_4931	Pennisetum_nervosum	Pennisetum_polystachion	Pennisetum_purpureum_Morrone_4220	Pennisetum_purpureum_Morrone_4473	Pennisetum_ramosum	Pennisetum_setaceum	Pennisetum_sieberianum	Pennisetum_squamulatum	Pennisetum_tristachyon	Pennisetum_unisetum	Pennisetum_villosum_PI_304750	Pennisetum_villosum_Doust_1500	Cenchrus_brownii	Cenchrus_ciliaris	Cenchrus_echinatus	Cenchrus_incertus	Cenchrus_myosuroides	Cenchrus_pilosus	Cenchrus_setigerus
	;
END;

BEGIN CHARACTERS;
	TITLE M4052;
	DIMENSIONS NCHAR=66;
	FORMAT DATATYPE = DNA MISSING = ? GAP = - ;
	MATRIX
		Chasmanthium_latifolium                 GACAGCGTACTAGACCAATCAGATTGATGTGGNNNACTGATTCCCAGGCTGAAAATAANANATAAA
		Zea_mays                                GGCAGC??????????AATTATATTGATGTGGTCAACTGCTGCTCTGGCTAATAAAAATT?ATAAA
		Sacciolepis_vilvoides                   GGCAGCGTGCTAGACCAATCAGATTGAGGAGACTAGCTGCTGCCCTGGCTGAAAATTATT?ATAAA
		Panicum_repens                          GGCAGCGTGCTATACCAATCATATTTTGGAGANNNNNNNNNNNNNNNNNNNAAAAATANNNNNNNN
		Urochloa_panicoides                     GGCAGCGTGCTATACCAATCATAATGTGGAGATCAACTGCTGCTCAGGCTGAAAATTATAAATTTA
		Ixophorus_unisetus                      AACAGCGTGCACTATCGCTCATTATGTGG?AACCAACTGCCGCCCAGGCTAAAAATTTAT?AATTT
		Paspalidium_geminatum                   AGCAGCGTGCACTGTCACTCATAATGTGG?GATCAGCTGCCGCCCAGGCTGAAAATTTAT?AATTT
		Pseudoraphis_paradoxa                   AGCAGCGTGCACTATCACTCATTATGAGG?GATCAACTGCCGCCCAGGCTGAAAATTTAAAAATTT
		Setaria_sulcata                         GGCAGCGTGCACTATCACTCATAATGTGG?GATTAACTGCCGCCCAGTCTGAAAATTTAT?AATTT
		Setaria_lachnea                         AGCAGCGTGCACTATCACTCATAATGTGG?GATCAACTGCCGCCCAGGCTGAAAATTTAT?AATTT
		Stenotaphrum_secundatum                 AGCAGCGTGCACTATCACTCATAATGTGG?GATCAACTGCCGCCCAGGCNNAAAATTTAT?AATTT
		Pennisetum_alopecuroides                AGAAGCGGGCACTATCACTCATAACGTGG?GATCGACGGCATCCCAGTCTGAAAATTTAT?AATTT
		Pennisetum_chilense                     AGAAGCGGGCACTATCGCTCGTAACGTGG?GATCGAC???ATCCCAGNNNNAAAATTTAT?T?TTT
		Pennisetum_clandestinum                 AGCAGCGGGCACTATCACTCGTCACGTGG?GATCAACGGCATGCCAGGCTGTAAATTTAT?AATTT
		Pennisetum_flaccidum                    AGAGGCGGGCACTATCACTCATTACTTGG?GATCGACGGCATGCCAGGATGATAATTTAT?AATTT
		Pennisetum_frutescens                   AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGGCATGCCAGGATGATAATTTAT?AATTT
		Pennisetum_glaucum                      AGAGGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATGCTAGGCGGAAAATTTAT?AATTT
		Pennisetum_lanatum                      AGCAGCGTGCACTATCACTCATAATGTGG?GA??AACTGCCGCCCAAGCTGAAAATTTAA?AATTT
		Pennisetum_latifolium                   AGAAGCGGGCACTATCACTCGTAACGTGG?GATCGAC???ATGCCAGGCTGAAAATTTAT?T?TTT
		Pennisetum_macrourum                    NGCAGCGGGGACTATCGCTCGTAACGTGG?GATCAATGGCATGCCAGGCTGTAAATTTAT?AATTT
		Pennisetum_montanum_Morrone_sn          AGAAGCGGGAACTATCACCCGTAACGTGG?GATCGAC???ATGCCAGGCTGAAAATTTAT?T?TTT
		Pennisetum_montanum_Morrone_4931        AGAAGCGGGAACTATCACCCGTAACGTGG?GATCGAC???ATGCCAGGCTGAAAATTTAT?T?TTT
		Pennisetum_nervosum                     AGAAGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATNNNNNNNNNAAAATTTAT?AATTN
		Pennisetum_polystachion                 AGAAGCGGGCACTATCTCTCGTTACGTGA?GATCGACGGC??????GGATGATAATTTAT?AA???
		Pennisetum_purpureum_Morrone_4220       AGAAGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATGCTAGGCGGAAAATTTAT?AATTT
		Pennisetum_purpureum_Morrone_4473       AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGACATGCCAGGATGATTATTTAT?AATTT
		Pennisetum_ramosum                      AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGGCATGCCAGGATGATAATTTAT?AATTT
		Pennisetum_setaceum                     AGAAGCGGGCACTATCACTCATGACGTGA?GGTCGACGACATGCCAGGATGATAATTTAT?AATTT
		Pennisetum_sieberianum                  AGAGGCGGGCACTATTACTCATAACGTGG?GATCGACGGTATGCTAGGCGGAAAATTTAT?AATTT
		Pennisetum_squamulatum                  AGAAGCGGGCACTATTACTCATAACGTGG?GANNGACGGTATGCTAGGCGGAAAATTTNT?AATTT
		Pennisetum_tristachyon                  AGAAGCGGGCACTATCACTCGTCACGTGG?GATCGAC???ATGCCAGNNNNAAAATTTAT?T?TTT
		Pennisetum_unisetum                     AGAAGCGGGCACTATCACTTATAACGTGG?GANNNNTAGCATGCCAAGCTNAAAATTTNNNAATTT
		Pennisetum_villosum_PI_304750           AGCAGAAGTCACTGTCGC??ATAACGTGG?GATCAACGGCATGCCAGGCTGTTATTTTAATAATTT
		Pennisetum_villosum_Doust_1500          AGCAGAAGTCACTGTCGC??ATAACGTGG?GATCAACGGCATGCCAGGCTGTTATTTTAATAATTT
		Cenchrus_brownii                        AGAAGCGGGCACTATCACTCATTACGTGA?AGTCGACGACATGCCAGGATGATAATTTAT?AATTT
		Cenchrus_ciliaris                       AGAAGCGGGCACTATCACTCATTACGTGA?GATCGACGACATGCCAGGATGATTATTTAT?AATTT
		Cenchrus_echinatus                      AGAAGCGGGCACTATCACTCATTACGTGA?AGTCGACGACATGCCAGGATGATAATTTAT?AATTT
		Cenchrus_incertus                       AGAAACGGGCACTATCGCTCATTACGTGA?GGTCGACGACATGCCAGGATGATAATTTAT?AATTT
		Cenchrus_myosuroides                    AGAAACGGGCACTATCGCTCATTACGTGA?GGTCGACGACATGCCAGGATGATAATTTAT?AATTT
		Cenchrus_pilosus                        AGAAGCGGGCACTATCACTCATTACGTGA?AGTCGACGACATGCCAGGATGATAATTTAT?AATTT
		Cenchrus_setigerus                      AGAAGCGGGCACTGTCACTCATTACGTGA?GATCGACGACATGCCAGGATGATTATTTAT?AATTT
	;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions = 
 N: 1 - 66 ; 
 CODESET * UNTITLED = Universal: all ; 
 END;

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