#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 19, 2024; 15:34 GMT

TreeBASE (cc) 1994-2008

Study reference:
Light J., Toups M., & Reed D. 2008. What's in a name: the taxonomic status of human
head and body lice. Molecular Phylogenetics and Evolution, null.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S2036]

[ The following blocks are input data for analysis step 4222 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep4222;
        DIMENSIONS NTAX=11;
        TAXLABELS
            Pediculus_humanus_capitis_AY316815_KittlerEthiopia
            Pediculus_humanus_capitis_AY316817_KittlerEthiopia2
            Pediculus_humanus_capitis_AY316818_KittlerEthiopia
            Pediculus_humanus_capitis_AY316820_KittlerEthiopia1
            Pediculus_humanus_capitis_AY316821_KittlerEthiopia2
            Pediculus_humanus_capitis_AY316826_KittlerEthiopia1
            Pediculus_humanus_capitis_AY316831_KittlerGermany
            Pediculus_humanus_capitis_AY316832_KittlerGermany
            Pediculus_humanus_capitis_AY316833_KittlerEthiopia
            Pediculus_humanus_humanus_AY316800_KittlerEthiopia
            Pediculus_schaeffi
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M3144]

	TITLE EF1_ML_unique_haplotypes;
	LINK TAXA = TaxaForAnalysisStep4222;
	DIMENSIONS NCHAR=536;
	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       440       450       460       470       480       490       500       510       520       530      ]
[                                                                .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .      ]
Pediculus_humanus_capitis_AY316815_KittlerEthiopia      GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTTGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTGAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316817_KittlerEthiopia2     GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTCGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAATTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316818_KittlerEthiopia      GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTTGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAATTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316820_KittlerEthiopia1     GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTCGAAATGCACCACGAAAACTTACAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAATTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316821_KittlerEthiopia2     GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTCGAAATGCACCACGAAAACTTACAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316826_KittlerEthiopia1     GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTCGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316831_KittlerGermany       GACGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTTGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316832_KittlerGermany       GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTTGAAATGCACCACGAAAACTTACAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_capitis_AY316833_KittlerEthiopia      GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTTGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_humanus_humanus_AY316800_KittlerEthiopia      GATGTATACAAAATTGGTGGTATCGGTACTGTGCCTGTTGGTAGAGTAGAAACTGGAGTTTTGAGACCTGGTATGGTCATTACTTTTGCTCCGATTAATTTAACTACTGAAGTTAAGTCTGTTGAAATGCACCACGAAAACTTGCAAGAAGCTGTGCCAGGAGATAACGTCGGTTTTAACGTCAAAAACGTTTCCGTAAAAGAATTGCGACGTGGATACGTTGTTGGTGACGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTCCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAAACAACCGAAGAAAATCCCAAGAGCATTAAAACAGGAGACGCAGCCATCGTTAACTTGGTTCCATCTAAATCCATGTGTGTTGA---------------------------------------------------
Pediculus_schaeffi                                      GATGTTTACAAAATCGGTGGAATCGGTACTGTGCCTGTTGGACGAGTAGAAACTGGGGTTTTGAAACCCGGTATGGTTGTTACTTTTGCTCCAGCTAATTTAACTACTGAAGTTAAATCTGTTGAAATGCACCACGAAAACTTACAAGAAGCTGTGCCAGGCGATAATGTCGGTTTTAACGTTAAAAACGTTTCTGTAAAAGAATTGCGTCGTGGATACGTTGCCGGCGATGCTAAAAATAATCCACCAAAAGCTGCAGCTGATTTTCTTGCTCAGGTCATTGTGCTAAATCACCCTGGACAAATATCAAACGGATATACTCCCGTATTAGATTGTCATACGGCTCACATAGCCTGTAAATTTGCTGAAATCAAAGAGAAATGTGACCGTCGTACAGGAAAGACAACTGAAGAAAATCCCAAGAGCATTAAAACAGGAGATGCAGCCATTGTTAATTTGGTTCCATCTAAACCCATGTGTGTTGA---------------------------------------------------
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = EF1_ML_unique_haplotypes) = 
		N: 1-536;
CODONPOSSET  CodonPositions (CHARACTERS = EF1_ML_unique_haplotypes) = 
		N: 1-536;
END;
[ The following blocks are output data for analysis step 4222 ]
BEGIN TREES;
      TITLE Tb8994;
      LINK TAXA = TaxaForAnalysisStep4222;
      TREE Fig._5b = [&R] (Pediculus_schaeffi,((((Pediculus_humanus_capitis_AY316833_KittlerEthiopia,Pediculus_humanus_capitis_AY316831_KittlerGermany,Pediculus_humanus_capitis_AY316815_KittlerEthiopia,Pediculus_humanus_humanus_AY316800_KittlerEthiopia),Pediculus_humanus_capitis_AY316826_KittlerEthiopia1,(Pediculus_humanus_capitis_AY316818_KittlerEthiopia,Pediculus_humanus_capitis_AY316817_KittlerEthiopia2)),Pediculus_humanus_capitis_AY316832_KittlerGermany,Pediculus_humanus_capitis_AY316821_KittlerEthiopia2),Pediculus_humanus_capitis_AY316820_KittlerEthiopia1));
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr5141]


END;