#NEXUS
[written Wed Aug 26 00:43:20 BRT 2015 by Mesquite  version 3.04 (build 725) at fernando-HP-Pavilion-15-Notebook-PC/127.0.1.1]

BEGIN TAXA;
	TITLE Taxa;
	DIMENSIONS NTAX=16;
	TAXLABELS
		'Caldanaerobacter subterraneus pacificus_CDSM653_0930' 'Caldanaerobacter subterraneus tengcongensis_NP_622543.1' 'Caldanaerobacter subterraneus yonseiensis_ERM93007.1' 'Coprothermobacter platensis WP_018962526.1' 'Coprothermobacter proteolyticus YP_002246548.1' 'Thermoanaerobacter ethanolicus WP_003870982.1' 'Thermoanaerobacter indiensis_WP_019907553.1' 'Thermoanaerobacter italicus YP_003476667.1' 'Thermoanaerobacter mathranii YP_003676613.1' 'Thermoanaerobacter pseudethanolicus YP_001665445.1' 'Thermoanaerobacter sp. YP_001663749.1' 'Thermoanaerobacter wiegelii YP_004819690.1' 'Thermoanaerobacterium saccharolyticum YP_006392732.1' 'Thermoanaerobacterium thermosaccharolyticum YP_003851721.1' 'Thermoanaerobacterium thermosaccharolyticum YP_007298418.1' 'Thermoanaerobacterium xylanolyticum YP_004471286.1' 
	;

END;


BEGIN CHARACTERS;
	TITLE  Character_Matrix;
	DIMENSIONS  NCHAR=221;
	FORMAT DATATYPE = Protein GAP = - MISSING = ?;
	MATRIX
	'Caldanaerobacter subterraneus pacificus_CDSM653_0930'      ----------MKELALYILDLAQNSVRAGAKNVEIEIEENPQEDLLTVYVKDDGCGMKKEFLEKVTSPFVTTRKERRVGLGIPLFKELTEECEGTFEIFSEEGK------GTRIKGTFKLSSVNLIPIGDIASTIVSLIMSAPQ-IDIVYRFKK-----GSREFEFDTKKIREVLK-DVNL-NDVRVLSWIREYVEEGMKKSEMEV---------------
	'Caldanaerobacter subterraneus tengcongensis_NP_622543.1'   ----------MKELALYILDLAQNSVRAGAKNVEIEIEENPQEDLLTVYVKDDGCGMKKEFLEKVTSPFVTTRKERRVGLGIPLFKELTEECEGTFEIFSEEGK------GTRIKGTFKLSSVNLIPIGDIASTIVSLIMSAPQ-IDIVYRFKK-----GSREFEFDTKKIREVLK-DVNL-NDVRVLSWIREYVEEGMKKSEMEV---------------
	'Caldanaerobacter subterraneus yonseiensis_ERM93007.1'      ----------MKELALYILDLAQNSVRAGAKNVEIEIEENPQEDLLTVYVKDDGCGMKKEFLEKVTSPFVTTRKERRVGLGIPLFKELTEECEGTFEIFSEEGK------GTRIKGTFKLSSVNLIPIGDIASTIVSLIMSAPQ-IDIVYRFKK-----GSREFEFDTKKIREVLK-DVNL-NDVRVLSWIREYVEEGMKKSEMEV---------------
	'Coprothermobacter platensis WP_018962526.1'                MSRPSSGKKKVKELALYILDLAENSIAAGAKNITIDVHVNSARDELFIRISDDGKGMDPDFVRSVTNPFVTTRTQRRLGLGLPLFQDLVRQCEGTLNIVSEKGK------GTIIEAKMKRSSVDMVPIGDMGASIVSMIISNPA-LDIVYSFVL-----DDYSFVFDTKLIRETLK-DVSI-TEPAVLSWIAGYVNEGTKEIIFDVTKNINKNRGGIQAL-
	'Coprothermobacter proteolyticus YP_002246548.1'            ----------MKELALYVLDLAQNSVVAGAKHITIDITADVKADHLLIRIVDDGKGMSPHLVERVTDPFFTSRKERRFGLGIPFFKDLVEQCGGTLTIKSKEGE------GTIIEGKLKLSSVDLVPLGDMGSTIVSLLVSNPE-LNLVYRFTL-----NDYSFTFDSAQIREVLQ-GVNI-TEPSVLNWIKDYVNEGSIEILPNINISKKEGAKKDYEAD
	'Thermoanaerobacter ethanolicus WP_003870982.1'             ----------MKELALYILDLSQNSIRAGAKNIYIEINIDTSKDMLKVSIEDDGCGMNEKFLKKVTDPFITTRKERKVGLGIPLFKELAQLCEGNFEILSEEGK------GTKIIGTFKLSSVDLVPIGDMASTIVSLILSAPE-VDIVYKYSK-----DGYEFLFDTKELRKVLK-EVSL-NDIKVLNWIKEYVKENMKGDMEV----------------
	'Thermoanaerobacter indiensis_WP_019907553.1'               ----------MKELALYILDLSQNSIRAGAKNIYIEINIDTSKDMLKVSIEDDGCGMNEKFLKKVTDPFITTKKERKVGLGIPLFKELAQLCEGNFEIFSEEGK------GTKIIGTFKLSSIDLVPIGDMASTIVSLILSAPE-VDIVYKYSK-----DGYEFLFDTKELRKVLK-EVSL-NDIKVLNWIKEYVKENMKGDMEV----------------
	'Thermoanaerobacter italicus YP_003476667.1'                ----------MKELALYILDLAQNSIRARAKNICVEINIDTSKDMLKVSIEDDGCGMKEELLKKVTDPFVTTRKERKVGLGIPLFKELVQQCEGNFEIFSEEGK------GTKIMGTFKLSSVDLVPLGDIASTIVSLILSAPE-VDIVYKYNK-----DNHEFLFDTKELKKILK-GVNI-NDIKVLNWIKEYINENMKGDMEVE---------------
	'Thermoanaerobacter mathranii YP_003676613.1'               ----------MKELALYILDLSQNSIRAGAKNICIEINIDTSKDMLKVSIEDDGCGMKEELLKKVTDPFVTTRKERKVGLGIPLFKELVQQCEGNFEIFSEEGK------GTKIMGTFKLSSVDLVPLGDIASTIVSVILSAPE-VDIVYKYNK-----DNHEFLFDTKELKKILK-GVNI-NDIKVLNWIKEYINENMKGDMEVE---------------
	'Thermoanaerobacter pseudethanolicus YP_001665445.1'        ----------MKELALYILDLSQNSIRAGAKNIYIEINIDTSKDMLKVSIEDDGCGMSKELLKKVTDPFITTRKERKVGLGIPLFKELAQLCEGNFEIFSVEGK------GTKIIGTFKLSSIDLVPIGDMASTIVSLILSAPD-LDIVYKYSK-----DNYEFLFDTKELKKILK-EVNI-NDIKVLSWIKEYVKENMKGDTEV----------------
	'Thermoanaerobacter sp. YP_001663749.1'                     ----------MKELALYILDLSQNSIRAGAKNIYIEINIDTSKDMLKVSIEDDGCGMSEELLKKVTDPFITTRKERKVGLGIPLFKELAQLCEGNFEIFSVEGK------GTKIIGIFKLSSIDLVPIGDMASTIVSLILSAPD-LDIVYKYSK-----DGYEFLLDTKELRKVLK-EVSL-NDIKVLNWIREYVEENMKGDMEV----------------
	'Thermoanaerobacter wiegelii YP_004819690.1'                ----------MKELALYILDLSQNSIRAGAKNIYIEINIDTSKDMLKVSIEDDGCGMNEKFLKKVTDPFITTRKERKVGLGIPLFKELAQLCEGNFEIFSEEGK------GTKIIGTFKLSSIDLVPIGDMASTIVSLILSAPE-VDIVYKYSK-----DGYEFLFDTKELRKVLK-EVSL-NDIKVLNWIKEYVKENMKGDMEV----------------
	'Thermoanaerobacterium saccharolyticum YP_006392732.1'      ----------MKELSLYILDIAQNSIKAGAKNISIKLEIDHKKDFMRLSIEDDGCGMDDELLKKAFDPFTTTRKERKVGLGLPFFKELALQCGGDAKIRSQKGV------GTYVEGTFNLSSVDLIPIGDIPSTIVSLIVSDSD-VDVLFEIIS-----DGRKFSFNTLDVKKLLN-GVKI-TEPSVLRWLIEYLEENINCVMEV----------------
	'Thermoanaerobacterium thermosaccharolyticum YP_003851721.1' ----------MKEFSLYILDIAQNSLKAGAKNVKIELDIDHSKDLLTVIVDDDGCGMEEEFLSKVFDPFTTTRKERKVGLGLSFFKELAQQCGGDAKIKSKKGI------GTHVEGTFKISSVDLIPIGDIPSTIISLIISDSE-VNILFVIKV-----DEKIFKFDTVEIKKVLD-GVKI-TEPSVLKWLLEYLTENLKCVMEV----------------
	'Thermoanaerobacterium thermosaccharolyticum YP_007298418.1' ----------MKEFSLYILDIAQNSLKAGAKNVKIELDIDHNKDLLTVIVDDDGCGMEEEFLSKVFDPFTTTRKERKVGLGLSLFKELALQCGGDVKIESKKGI------GTHVEGTFKISSVDLIPIGDIPSTIISLIISDSE-VNILFVIKV-----DEKIFKFDTVEIKKVLD-GVKI-SEPSVLKWLREYLTENLKCVMEV----------------
	'Thermoanaerobacterium xylanolyticum YP_004471286.1'        ----------MKELSLYILDIAQNSIKAGAKNISIKLEIDHKKDFMRLSIEDDGCGMDEELLKKAFDPFTTTRKERKVGLGLPFFKELALQCGGDAKIRSQKGV------GTYVEGTFNLSSVDLIPIGDIPSTIVSLIVSDSD-VDVLFEIIS-----DGKKFSFNTLDVKKLLN-GVKI-TEPSVLRWLIEYLEENINCVMEV----------------

;


END;

BEGIN ASSUMPTIONS;
	TYPESET * UNTITLED   =  unord:  1 -  221;

END;

BEGIN NOTES;

	TAXABITS   TAXA = Taxa NAME = newlyAddedTaxon on =  1 -  16;

END;

BEGIN CODONS;
	CODESET * UNTITLED   =  universal:  1 -  221;


END;

BEGIN MESQUITECHARMODELS;
	ProbModelSet * UNTITLED   =  'Mk1 (est.)':  1 -  221;
END;

BEGIN TREES;
	Title 'Trees from "0891.tre"';
	LINK Taxa = Taxa;
	TRANSLATE
[0] 		n0 'Caldanaerobacter subterraneus pacificus_CDSM653_0930',
[1] 		n1 'Caldanaerobacter subterraneus tengcongensis_NP_622543.1',
[2] 		n2 'Caldanaerobacter subterraneus yonseiensis_ERM93007.1',
[3] 		n3 'Coprothermobacter platensis WP_018962526.1',
[4] 		n4 'Coprothermobacter proteolyticus YP_002246548.1',
[5] 		n5 'Thermoanaerobacter ethanolicus WP_003870982.1',
[6] 		n6 'Thermoanaerobacter indiensis_WP_019907553.1',
[7] 		n7 'Thermoanaerobacter italicus YP_003476667.1',
[8] 		n8 'Thermoanaerobacter mathranii YP_003676613.1',
[9] 		n9 'Thermoanaerobacter pseudethanolicus YP_001665445.1',
[10] 		n10 'Thermoanaerobacter sp. YP_001663749.1',
[11] 		n11 'Thermoanaerobacter wiegelii YP_004819690.1',
[12] 		n12 'Thermoanaerobacterium saccharolyticum YP_006392732.1',
[13] 		n13 'Thermoanaerobacterium thermosaccharolyticum YP_003851721.1',
[14] 		n14 'Thermoanaerobacterium thermosaccharolyticum YP_007298418.1',
[15] 		n15 'Thermoanaerobacterium xylanolyticum YP_004471286.1';
	TREE tree_1 = (((n15:0.000001,n12:0.010692)0.9920:0.182944,(n13:0.000002,n14:0.037674)0.8090:0.143391)0.9990:0.253499,((n3:0.268609,n4:0.202328)0.9950:0.262496,((((n10:0.022828,n9:0.025475)0.8130:0.023404,(n5:0.010459,(n6:0.005211,n11:0.000001)0.0000:0.000001)0.0840:0.010094)0.9090:0.051917,(n7:0.014913,n8:0.005876)0.8760:0.046633)0.9510:0.1014,(n1:0.000001,(n0:0.000001,n2:0.000001)0.0000:0.000001)0.9990:0.182826)0.8690:0.086609)0.8450:0.054924)root;

END;


Begin MESQUITE;
		MESQUITESCRIPTVERSION 2;
		TITLE AUTO;
		tell ProjectCoordinator;
		timeSaved 1440560600802;
		getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa;
		tell It;
			setID 0 2671706624078123909;
			tell It;
				setDefaultOrder  14 13 15 4 5 8 9 11 12 7 6 10 1 2 3 0;
				attachments ;
			endTell;
		endTell;
		getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters;
		tell It;
			setID 0 7439380938183653773;
			mqVersion 304;
			checksumv 0 3 4291306831 null  getNumChars 221 numChars 221 getNumTaxa 16 numTaxa 16   short false   bits 1048575   states 1048575   sumSquaresStatesOnly 2.4878673357941E13 sumSquares 2.4878673357941E13 longCompressibleToShort false usingShortMatrix false   NumFiles 1 NumMatrices 1;
			mqVersion;
		endTell;
		getWindow;
		tell It;
			suppress;
			setResourcesState false false 234;
			setPopoutState 300;
			setExplanationSize 0;
			setAnnotationSize 0;
			setFontIncAnnot 0;
			setFontIncExp 0;
			setSize 700 609;
			setLocation 61 62;
			setFont SanSerif;
			setFontSize 10;
			getToolPalette;
			tell It;
			endTell;
			desuppress;
		endTell;
		getEmployee  #mesquite.minimal.ManageTaxa.ManageTaxa;
		tell It;
			showTaxa #2671706624078123909 #mesquite.lists.TaxonList.TaxonList;
			tell It;
				setTaxa #2671706624078123909;
				getWindow;
				tell It;
					newAssistant  #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition;
					setExplanationSize 30;
					setAnnotationSize 20;
					setFontIncAnnot 0;
					setFontIncExp 0;
					setSize 466 537;
					setLocation 61 62;
					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;
		getEmployee  #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord;
		tell It;
			showDataWindow #7439380938183653773 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker;
			tell It;
				getWindow;
				tell It;
					setExplanationSize 30;
					setAnnotationSize 20;
					setFontIncAnnot 0;
					setFontIncExp 0;
					setSize 466 537;
					setLocation 61 62;
					setFont SanSerif;
					setFontSize 10;
					getToolPalette;
					tell It;
					endTell;
					setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow;
					colorCells  #mesquite.charMatrices.ColorByState.ColorByState;
				tell It;
					setStateLimit 9;
					toggleUniformMaximum on;
				endTell;
					colorRowNames  #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor;
					colorColumnNames  #mesquite.charMatrices.CharGroupColor.CharGroupColor;
					colorText  #mesquite.charMatrices.NoColor.NoColor;
					setBackground White;
					toggleShowNames on;
					toggleShowTaxonNames on;
					toggleTight off;
					toggleThinRows off;
					toggleShowChanges off;
					toggleSeparateLines off;
					toggleShowStates on;
					toggleAutoWCharNames off;
					toggleAutoTaxonNames off;
					toggleShowDefaultCharNames off;
					toggleConstrainCW on;
					toggleBirdsEye off;
					toggleShowPaleGrid off;
					toggleShowPaleCellColors off;
					toggleShowPaleExcluded off;
					togglePaleInapplicable on;
					toggleShowBoldCellText off;
					toggleAllowAutosize off;
					toggleColorsPanel off;
					toggleLinkedScrolling on;
					toggleScrollLinkedTables off;
				endTell;
				showWindow;
				getWindow;
				tell It;
					forceAutosize;
				endTell;
				getEmployee #mesquite.charMatrices.ColorCells.ColorCells;
				tell It;
					setColor Red;
					removeColor off;
				endTell;
				getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip;
				tell It;
					showStrip off;
				endTell;
				getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel;
				tell It;
					togglePanel off;
				endTell;
				getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip;
				tell It;
					showStrip off;
				endTell;
				getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector;
				tell It;
					autotabOff;
				endTell;
				getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip;
				tell It;
					showStrip off;
				endTell;
				getEmployee #mesquite.align.AlignToDropped.AlignToDropped;
				tell It;
					gapCosts 8 3 2 2;
					subCosts  5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5;
				endTell;
				getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor;
				tell It;
					panelOpen false;
				endTell;
			endTell;
		endTell;
		endTell;
end;