#NEXUS
[!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file.


Generated on May 25, 2024; 1:29 GMT

TreeBASE (cc) 1994-2008

Study reference:
Peever T., Su G., Carpenter-boggs L., & Timmer L. 2003. Molecular systematics of
citrus-associated Alternaria species. Mycologia, 96(1): 119-134.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S1002]

BEGIN TAXA;
        TITLE  mitochondrial_large_ribosomal;
        DIMENSIONS NTAX=8;
        TAXLABELS
            Alternaria_alternata
            Alternaria_brassicicola
            Alternaria_infectoria
            Alternaria_limicola
            Alternaria_solani_1
            Alternaria_solani_3
            Alternaria_solani_4
            Alternaria_toxicogenica
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M567]

	TITLE mtLSU;
	LINK TAXA = mitochondrial_large_ribosomal;
	DIMENSIONS NCHAR=432;
	FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -;

MATRIX
[                                   10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430  ]
[                                    .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .  ]
Alternaria_alternata        AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATAGATTAAATTTAAGAAATTAAATTGAAGAAACATAATTTTAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGGTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATCCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATATGCTCTCG
Alternaria_brassicicola     AAGTTCTAGTTAGATGCAAGCAGCTAGTGATTAGTGGTGATAGATTAAATTTAAGAAATTAAATTGAAGAAACATAATTTTAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGGTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATCCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGG-TCGTGAAGACTCTATTCGCGAGTATTTGCTCACG
Alternaria_infectoria       AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATAGATTAAATTTAAGAAATTAAATTGAAGAAACATAATTTTAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGGTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAGGTTAGTGAAAGACAATCCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATTTGCTCTCG
Alternaria_limicola         AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATATATTAAATACAAG-----AAA---------CATAATATAAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGGTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATTCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATTTGCTCTCG
Alternaria_solani_1         AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATATATTAAATACAAG-----AAA---------CATAATATAAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGTTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATTCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATTTGCTCTCG
Alternaria_solani_3         AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATATATTAAATACAAG-----AAA---------CATAATATAAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGTTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATTCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATTAGCTCTCG
Alternaria_solani_4         AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATATATTAAATACAAG-----AAA---------CATAATATAAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGTTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATTCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCGTTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATTTGCTCTCG
Alternaria_toxicogenica     AAGTTCTAGTTAGATGCAAGCAAGTAGTGATTAGTGGTGATAGATTAAATTTAAGAAATTAAATTGAAGAAACATAATTTTAATACACAAAAAAGAATCAATTTGCCTAGATAATCCAATTATTAAGTAATGAATTAGTATCTAATTAGAGACCCGAAGAGTAGTGATCTTACCATGGTCAGGCTTATAAAAGGCCGAATGGGTTATCGTTGTAAAGATATCCAAAGAACTGTGGTAAGTTAGTGAAAGACAATCCTGACTACTATAGCTGGTTTTCCGCGAAACATATGTAAGTATGTAGTTTAAATAACATCATAGCAGGTACAGAACTGTGATCTCGGACAATTTGTGCATTAATATCCTATTAGGGTATATAATGCCTTGTGCATATGGGGGGGTCGTGAAGACTCTATTCGCGAGTATTTGCTCTCG
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = mtLSU) = 
		N: 1-432;
CODONPOSSET  CodonPositions (CHARACTERS = mtLSU) = 
		N: 1-432;
END;