#NEXUS
[written Wed Oct 01 12:00:19 EDT 2014 by Mesquite  version 3.01 (build 658) at naama-mendas-macbook-4.local/192.168.1.146]

BEGIN TAXA;
	TITLE Taxa;
	DIMENSIONS NTAX=7;
	TAXLABELS
		Solanum_lycopersicum_Heinz1706 Solanum_lycopersicum_BTI87 Solanum_lycopersicum_YP Solanum_pimpinellifolium_LA1589 Solanum_lycopersicum_GH13 Solanum_galapagense_LA0436 Solanum_chilense_LA2779 
	;

END;


BEGIN TREES;
	Title Imported_trees;
	LINK Taxa = Taxa;
	TRANSLATE
[0] 		1 Solanum_lycopersicum_Heinz1706,
[1] 		2 Solanum_lycopersicum_BTI87,
[2] 		3 Solanum_lycopersicum_YP,
[3] 		4 Solanum_pimpinellifolium_LA1589,
[4] 		5 Solanum_lycopersicum_GH13,
[5] 		6 Solanum_galapagense_LA0436,
[6] 		7 Solanum_chilense_LA2779;
	TREE Imported_tree_1 = ((((1,2)0.38,3)0.31,((4,(5,6)0.54)0.92),7));

END;



BEGIN TAXA;
	TITLE Taxa2;
	DIMENSIONS NTAX=7;
	TAXLABELS
		Solanum_lycopersicum_Heinz1706 Solanum_lycopersicum_YP Solanum_lycopersicum_GH13 Solanum_lycopersicum_BTI87 Solanum_galapagense_LA0436 Solanum_pimpinellifolium_LA1589 Solanum_chilense_LA2779 
	;

END;


BEGIN CHARACTERS;
	TITLE  Character_Matrix;
	LINK TAXA = Taxa2;
	DIMENSIONS  NCHAR=619;
	FORMAT DATATYPE = DNA GAP = - MISSING = ?;
	MATRIX
	Solanum_lycopersicum_Heinz1706   CTTGAGGGGGCAAGAAGGAAGTACTGAGTCAATGCTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTCGATATTTATCAAAAGCTCCCAAAGTCTACAATAGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAACCCTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTGATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCGATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGAATTGTTTTATTTGTATCTATTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAGATATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGATTTAGCTATTGATATAATCTTGTCGTTATGAACTTAAGGAGAATCT-AAGCATCTTTTATCGTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--
	Solanum_lycopersicum_YP          CTTGAGGGGGCAAGAAGGAAGTACTGAGTCAATGCTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTCGATATTTATCAAAAGCTCCCAAAGTCTACAATAGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAACCCTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTGATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCGATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGAATTGTTTTATTTGTATCTATTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAGATATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGATTTAGCTATTGATATAATCTTGTCGTTATGAACTTAAGGAGAATCT-AAGCATCTTTTATCGTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--
	Solanum_lycopersicum_GH13        CTTGAAGGGGCAAGAAGGAAGTACTGAGTCAATGCTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTCGATATTTATCAAAAGCTCCCAAAGTCTACAATCGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAACCCTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTGATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCTATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGACTTGTTTTATTTGTATCTATTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAGATATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGATTTAGCTATTGATATAATCTTCTCGTTATGAACTTAAGGAGAATCT-AAGCATCTTTTATCCTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--
	Solanum_lycopersicum_BTI87       CTTGAGGGGGCAAGAAGGAAGTACTGAGTCAATGCTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTCGATATTTATCAAAAGCTCCCAAAGTCTACAATAGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAACCCTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTGATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCGATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGAATTGTTTTATTTGTATCTATTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAGATATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGATTTAGCTATTGATATAATCTTGTCGTTATGAACTTAAGGAGAATCT-AAGCATCTTTTATCGTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--
	Solanum_galapagense_LA0436       CTTGAAGGGGCAAGAAGGAAGTACTGAGTCAATGTTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTCGATATTTATCAAAAGCTCCCAAAGTCTACAATCGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAATCCTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTGATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCTATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGACTTGTTTTATTTGTATCTATTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAG-TATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGATTTAGCTATTGATATAATCTTCTCGTTATGAACTTAAGGAGAATCT-AAGCATCTTTTATCCTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--
	Solanum_pimpinellifolium_LA1589  CTTGAAGGGGCAAGAAGGAAGTACTGAGTCAATGCTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTCGATATTTATCAAAAGCTCCCAAAGTCTACAATCGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAACCCTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTGATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCTATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGACTTGTTTTATTTGTATCTATTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAGATATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGATTTAGCTATTGATATAATCTTCTCGTTATGAACTTAAGGAGAATCT-AAGCATCTTTTATCCTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--
	Solanum_chilense_LA2779          CTTGAAGGGGCAAGAAGGAAGTACTGAGTCAATGCTGTTGGAATCTCAGATTTTGTATCGATTAGGAAAGATGGGTGCATCTGTTGATATTTATCAAAAGCTCCCAAAGTCTACGATAGATTCCTTGGAGATAAATCTTGTTGCTGGTCTGGTTTCTGCTGGAAGATCTTCTGAAGTGCAGGGAACCTTGGATTCACTGAGAGTTAAAGCAACTAGCAGTTTTGAATTGGCTTACAACACTGCCTGCTCTTTAATTGAAAGGGAGAAGTACAAAGATGCGGAACAACTGTTATTGTCAGCTCGAAGGCAAGTTTGCCTCTATTAAGCTCTTCATAACCCCATGAAAGAATTAGATTCAGTTAGTCCTGACTTGTTTTATTTGTATGACTTTTATCCATTTTCTTAACAGTTGATGATGCACAATCTATGACTAGTAAAAAGAGCATCAGATATTTCCTTGCTTGGAAGTTATTTTGGAGGGTTTAAGTTGGCATCAAGATATACTTGCTTTAGCTATTGATATAATCTTGTCGTTATGAACTTAAGGAGAATCTTAAGCATCTTTTATCCTCTTATTTGGGTTTAACTTTTTGTTGGCTTTTTAACCATTTAGTAAT--

;



END;

BEGIN ASSUMPTIONS;
	TYPESET * UNTITLED   =  unord:  1 -  619;

END;

BEGIN NOTES;

	TAXABITS   TAXA = Taxa2 NAME = newlyAddedTaxon on =  1 -  7;

END;

BEGIN CODONS;
	CODESET * UNTITLED   =  universal:  1 -  619;


END;

BEGIN MESQUITECHARMODELS;
	ProbModelSet * UNTITLED   =  'Jukes-Cantor':  1 -  619;
END;

Begin MESQUITE;
		MESQUITESCRIPTVERSION 2;
		TITLE AUTO;
		tell ProjectCoordinator;
		timeSaved 1412179219535;
		getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa;
		tell It;
			setID 0 8523346037594053452;
			setID 1 1246486690566040488;
		endTell;
		getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters;
		tell It;
			setID 0 7981659286646837718;
			mqVersion 301;
			checksumv 0 3 3687863248 null  getNumChars 619 numChars 619 getNumTaxa 7 numTaxa 7   short true   bits 15   states 15   sumSquaresStatesOnly 115309.0 sumSquares 115309.0 longCompressibleToShort false usingShortMatrix true   NumFiles 1 NumMatrices 1 errorReportedDuringRun;
			mqVersion;
		endTell;
		getWindow;
		tell It;
			suppress;
			setResourcesState false false 191;
			setPopoutState 400;
			setExplanationSize 0;
			setAnnotationSize 0;
			setFontIncAnnot 0;
			setFontIncExp 0;
			setSize 700 472;
			setLocation 8 22;
			setFont SanSerif;
			setFontSize 10;
			getToolPalette;
			tell It;
			endTell;
			desuppress;
		endTell;
		getEmployee  #mesquite.minimal.ManageTaxa.ManageTaxa;
		tell It;
			showTaxa #8523346037594053452 #mesquite.lists.TaxonList.TaxonList;
			tell It;
				setTaxa #8523346037594053452;
				getWindow;
				tell It;
					newAssistant  #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition;
					getTable;
					tell It;
						rowNamesWidth 244;
					endTell;
					setExplanationSize 30;
					setAnnotationSize 20;
					setFontIncAnnot 0;
					setFontIncExp 0;
					setSize 509 400;
					setLocation 8 22;
					setFont SanSerif;
					setFontSize 10;
					getToolPalette;
					tell It;
						setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam;
					endTell;
				endTell;
				showWindow;
				getEmployee #mesquite.lists.ColorTaxon.ColorTaxon;
				tell It;
					setColor Red;
					removeColor off;
				endTell;
				getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel;
				tell It;
					togglePanel off;
				endTell;
			endTell;
			showTaxa #1246486690566040488 #mesquite.lists.TaxonList.TaxonList;
			tell It;
				setTaxa #1246486690566040488;
				getWindow;
				tell It;
					newAssistant  #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition;
					getTable;
					tell It;
						rowNamesWidth 262;
					endTell;
					setExplanationSize 30;
					setAnnotationSize 20;
					setFontIncAnnot 0;
					setFontIncExp 0;
					setSize 509 400;
					setLocation 8 22;
					setFont SanSerif;
					setFontSize 10;
					getToolPalette;
					tell It;
						setTool mesquite.lists.TaxonList.TaxonListWindow.ibeam;
					endTell;
					setActive;
				endTell;
				showWindow;
				getEmployee #mesquite.lists.ColorTaxon.ColorTaxon;
				tell It;
					setColor Red;
					removeColor off;
				endTell;
				getEmployee #mesquite.lists.TaxonListAnnotPanel.TaxonListAnnotPanel;
				tell It;
					togglePanel off;
				endTell;
			endTell;
		endTell;
		endTell;
end;