#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 April 16, 2024; 18:42 GMT

TreeBASE (cc) 1994-2008

Study reference:
Collevatti R., Colli G., Giugliano L., Werneck F., & Werneck F. 2008. Phylogeny,
biogeography and evolution of clutch size in South American lizards of the genus
Kentropyx (Squamata: Teiidae). Molecular Ecology, null.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S2213]

[ The following blocks are input data for analysis step 4637 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep4637;
        DIMENSIONS NTAX=16;
        TAXLABELS
            Ameiva_ameiva
            Cnemidophorus_gramivagus
            Kentropyx_altamazonica_1
            Kentropyx_altamazonica_2
            Kentropyx_calcarata_1
            Kentropyx_calcarata_2
            Kentropyx_paulensis_1
            Kentropyx_paulensis_2
            Kentropyx_pelviceps
            Kentropyx_sp_1
            Kentropyx_sp_2
            Kentropyx_striata
            Kentropyx_vanzoi_1
            Kentropyx_vanzoi_2
            Kentropyx_viridistriga_1
            Kentropyx_viridistriga_2
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M3881]

	TITLE 12s;
	LINK TAXA = TaxaForAnalysisStep4637;
	DIMENSIONS NCHAR=333;
	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   ]
[                                     .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .   ]
Ameiva_ameiva                GTTTATCCGCCAGAGGATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAACCCTGCCTAGAGGAGCCTGTTTCATAATCGATAACCCCCGTTCAACCCAACCTTCCCTCG-AA--CATC--CCAGCCTATATACCGCCGTCTTACT--TCTAGCTTACCTTCTGAAAGAAACAC-AGTAAGCACAATAG-TC-CC-AACTGAAAAGTCAGGTCAAGGTGTAGCTTATGGGAAGGAGAAAATGGGCTACATTTTCTGT-CACAGAACACCCACGGAAAATATTCTGAAA-TAAAATAT-ATAAAGGCGGATTTAGCAGTAAG
Cnemidophorus_gramivagus     ACTCGTCCGCCAGAAAATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGTTTCATAATCGATAACCCCCGTTCAACCCGACCTTTCCTTGAAA--TATT--TCAGCCTATATACCGCCGTCCT-TT--TC-CGCCTACCTTCTGAAAGACCTAC-AGTAGGCCTAATAGTTCACC-AACTAAAAAGTCAGGTCAAGGTGTAGCTTATGGAAAGGAGAAAATGGGCTACATTTTCTAC-TATAGAACA-CCACGAAATACTTTCTGAAA-T-AAATGT-ATGAAGGAGGATTTAGTAGTAAG
Kentropyx_altamazonica_1     ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCAACCTTCCCTTGAAA-TTTATTTTCAGCCTATATACCGCCGTCCT--T-TAC-CGCTTACCTTCTGAAAGAAATACTAGTAAGCCTAATAG-CCCCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCCTATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAACA--CACGAAATATACTCTGAAATCAAAGTAA-CTGAAGGCGGATTTAGTAGTAAG
Kentropyx_altamazonica_2     ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAATTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGCTTAACCCAACCTTCCCTTGAAA--CCATTTTCAGCCTATATACCGCCGTCCT--T-TAC-CGCTTACCTTCTGAAAGTCACACTAGTAAGCCTAATAG-CCATT-AGCTAGAAAGTCAGGTCAAGGTGTAGCCCATGGGTAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAACA--CACGAAACATACTCTGAAATCAAAGTAA-CCGAAGGCGGATTTAGTAGTAAG
Kentropyx_calcarata_1        ACTTGTCCGCCAGAAAATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACAGTGT-CCTAT-CTGCCTAGAGGAGCCTGCTTCATAATCGATAAACCCCGTTCAACCCAACCCTCCCTCGAAA-TCCACTTTCAGCCTATATACCGCCGTCCT--TCTTG-CGCTTACCTTCTGAAAGATCTATTAGTAAGCCCAATAG-CCCTTAAGCTAAAAAGTCAGGTCAAGGTGTAGCCCATGGGAGGGAGAAAGTGGGCTACATTTTCTACCT-TAGAACA--CACGAAATATATTCTGAAACCAAAGTAATATGAAGGTGGATTTAGTAGTAAG
Kentropyx_calcarata_2        ACTTGTCCGCCAGAAAATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACAGTGT-CCTAT-CTGCCTAGAGGAGCCTGCTTCATAATCGATAAACCCCGCTCAACCCGACCCTCCCTCGAAA-CCCACTTTCAGCCTATATACCGCCGTCCT--TCTAG-CGCTTACCTTCTGAAAGATCTATCAGTAAGCCCAATAG-CCCTTAAGCTAAAAAGTCAGGTCAAGGTGTAGCCCATGGGAGGGAGAAAGTGGGCTACATTTTCTACCT-TAGAACA--CACGAAATATACTCTGAAACCAAAGTAATATGAAGGTGGATTTAGTAGTAAA
Kentropyx_paulensis_1        ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATTCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCGACCTTCCCTTGAAA-CCCAC-TTCAGCCTATATACCGCCGTCCT-TTATAC-CGCTTACCTTTTGAAAGATATACGAGTAAGCCAAATAG-CTTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAACA--TACGAAATGTACTCTGAAATTAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_paulensis_2        ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATTCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCGACCTTCCCTTGAAA-CCCAC-TTCAGCCTATATACCGCCGTCCT-TTATAC-CGCTTACCTTTTGAAAGATATACGAGTAAGCCAAATAG-CTTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAACA--TACGAAATGTACTCTGAAATTAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_pelviceps          AATTGTTCGCCAGAAAATTACGGGTGAAAACCTAAAACTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCTAACCTTCCCTTGAAA-CCTACTTTCAGCCTATATACCGCCGTCCT--T--AC-CGCTTACCTTCTGAAAGATGTACTAGTAAGCTCAACAG-CACTT-AACTAAAAAGTCAGGTCAAGGTGTAGCCCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTT-CAGAATA--CACGAAATATACTCTGAAAT-AAAGTAA-ATGAAGGCGGATTTAGTAGTAAG
Kentropyx_sp_1               ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATTCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCAACCTTCCCTTGAAA-CCTTC-TTCAGCCTATATACCGCCGTCCT-TTATAC-CGCTTACCTTTTGAAAGATATATGAGTAAGCCAAATAG-CCTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGATTA--TACGAAATGTACTCTGAAATTAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_sp_2               ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATTCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCAACCTTCCCTTGAAA-CCTTC-TTCAGCCTATATACCGCCGTCCT-TTATAC-CGCTTACCTTTTGAAAGATATATGAGTAAGCCAAATAG-CCTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGATTA--TACGAAATGTACTCTGAAATTAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_striata            ACTTGTTCGCCAGAAAATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCTACCTCCCCTCGAAA--TC-C---CAGCCTATATACCGCCGTCAT-CT--AC-CGCTTACCTTCTGAAAGACATAC-AGTAAGCCTAATAG-CC-CT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTAATGGGAAGGAGAAAGTGGGCTACATTTTCTAC-TCAAGAACA--CACGAAACTTATCCTGAAA-TAAGGTAA-ATGAAGGCGGATTTAGTAGTAAG
Kentropyx_vanzoi_1           ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCGACCTTCCCTTGAAA--T-TT-TACAGCCTATATACCGCCGTCCT-CT-TGC-CGCTTACCTTCTGAAAGACATATGAGTAAGCCAAATAGCCCTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCCTATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAATA--TACGAAATATGCTCTGAAATCAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_vanzoi_2           ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATCCTGCCTAGAGGAGCCTGCTTCATAATCGATAACCCCCGTTCAACCCGACCTTCCCTTGAAA--T-TT-TACAGCCTATATACCGCCGTCCT-CT-TGC-CGCTTACCTTCTGAAAGACATATGAGTAAGCCAAATAGCCCTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCCTATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAATA--TACGAAATATGCTCTGAAATCAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_viridistriga_1     ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATTCTGACTAGAGGAGCCTGCTTCATAATCGATAACCCCCGCTCAACCCAACCTCCCCTTGAAATCTCGC-TTCAGCCTATATACCGCCGTCCT-CTA-AC-CGCTTACCTTCTGAAAGATATACGAGTAAGCCTAATAG-CCTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAACA--TACGAATTATACTCTGAAACTAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
Kentropyx_viridistriga_2     ACTTGTTCGCCAGAATATTACGGGCGAAAGCCTAAAACTCAAAAGACTTGACGGTGTCCCAATTCTGACTAGAGGAGCCTGCTTCATAATCGATAACCCCCGCTCAACCCAACCTCCCCTTGAAATCTCGC-TTCAGCCTATATACCGCCGTCCT-CTA-AC-CGCTTACCTTCTGAAAGATATACGAGTAAGCCTAATAG-CCTCT-AGCTAAAAAGTCAGGTCAAGGTGTAGCTCATGGGAAGGAGAAAGTGGGCTACATTTTCTACTTCTAGAACA--TACGAATTATACTCTGAAACTAAAGTAA-ATGAAGGCGGATTTAGTAGTAAA
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = 12s) = 
		N: 1-333;
CODONPOSSET  CodonPositions (CHARACTERS = 12s) = 
		N: 1-333;
END;
[ The following blocks are output data for analysis step 4637 ]
BEGIN TREES;
      TITLE Tb9409;
      LINK TAXA = TaxaForAnalysisStep4637;
      TREE 12s_parsimony = [&R] (Ameiva_ameiva,(Cnemidophorus_gramivagus,(Kentropyx_striata,(((Kentropyx_altamazonica_1,(Kentropyx_altamazonica_2,(Kentropyx_pelviceps,(Kentropyx_calcarata_2,Kentropyx_calcarata_1)))),(Kentropyx_vanzoi_2,Kentropyx_vanzoi_1)),(((Kentropyx_paulensis_1,Kentropyx_paulensis_2),(Kentropyx_sp_1,Kentropyx_sp_2)),(Kentropyx_viridistriga_2,Kentropyx_viridistriga_1))))));
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr5421]


END;