#NEXUS
[written Thu Sep 24 17:25:11 JST 2020 by Mesquite  version 3.61 (build 927) at tsutsumichie-no-iMac.local/202.220.64.189]

BEGIN TAXA;
	TITLE Taxa;
	DIMENSIONS NTAX=14;
	TAXLABELS
		Osmunda_regalis_R10 Osmunda_japonica_J1J6J7J8 Osmunda_japonica_J2J3J4J5 Osmunda_regalis_R13aR14R15R16R17R18KH Osmunda_regalis_R13b Osmunda_lancea_L1 Osmunda_regalis_R5 Osmunda_regalis_R6 Osmunda_regalis_R7 Osmunda_lancea_L2L3 Osmunda_regalis_R1R2R3R4 Osmunda_regalis_R11R12 Osmunda_regalis_R8R9 Claytosmunda_claytoniana_CL1CL2 
	;

END;


BEGIN CHARACTERS;
	TITLE  Character_Matrix;
	DIMENSIONS  NCHAR=303;
	FORMAT DATATYPE = DNA GAP = - MISSING = ?;
	MATRIX
	Osmunda_regalis_R10                    CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTTGTCGCTCAAGACAGTTATCCCTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCGCTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_japonica_J1J6J7J8              CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTTGTCACTCAAGACAGTTATCCCTAATATCTATTTTCTGGAGATCATCAGAGTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAGGGGCTGGTCTTTTCGTACACTTGCGCTCCTAGCCTTGGACGAATGCCAAAT
	Osmunda_japonica_J2J3J4J5              CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTTGTCACTCAAGACAGTTATCCCTAATATCTATTTTCTGGAGATCATCAGAGTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTCGTACACTTGCGCTCCTAGCCTTGGACGAATGCCCAAT
	Osmunda_regalis_R13aR14R15R16R17R18KH  CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTTGTCGCTCAAGACAGTTATCCCTAATATATATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCGCTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_regalis_R13b                   CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTcGTTCAGGTTCTTTGTCGCTCAAGACAGTTATCCCTAATATATATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCGCTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_lancea_L1                      CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTTGTCACTCAAGACAGTTATCCCTAATATCTATTTTCTGGAGATCATCAGAGTGCCTATTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTCGTACACTTGCGCTCCTAGCCTTGGAAGAATGCCCAAT
	Osmunda_regalis_R5                     CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTCGTCGCTCAAGACAGTTATCCCTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCACTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_regalis_R6                     CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTT????GGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTCGTCGCTCAAGACAGT?????CTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCACTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_regalis_R7                     CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCCTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTCGTCGCTCAAGACAGTTATCCCTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCACTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_lancea_L2L3                    CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTTGTCACTCAAGACAGTTATCCCTAATATCTATTTTCTGGAGATCATCAGAGTGCCTATTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTCGTACACTTGCGCTCCTAGCCTTGGATGAATGCCCAAT
	Osmunda_regalis_R1R2R3R4               CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTCGTCGCTCAAGACAGTTATCCCTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCGCTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_regalis_R11R12                 CATTCCTGCTAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTCGTCGCTCAAGACAGTTATCCCTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCGCTCCTAGCCTTGGACAAATGCCCAAT
	Osmunda_regalis_R8R9                   CATTCCTGCCAAGCTTTGCAAGCGTGAAAACACAAAGCAGTTCCATGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTTTGTTCAGGTTCTTCGTGGCTCAAGACAGTTATCCCTAATATCTATTTTCTCGAGATCATCAGATTGCCTTTTGTTTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTTTTTGTACACTTGCGCTCCTAGCCTTGGACAAATGCTCAAT
	Claytosmunda_claytoniana_CL1CL2        CATTCCTGCCAAGCTTTGCAAGCGTGAGAACACAAAGCAGTTCCACGACTCAAAGATCAAGTTCCCCTTGATATTTCGCAAGATCCGTCCTCCTACAAGGAAGCTGAAAACAACTTACAAGGCCAGCAGGCCAAACACCTTTGTGTAGCTGATGTGTGTTCAGGTTCTTTGTGGCTCAAGACAGTTATCCCTAATATCTATTTTCTGGAGATCATCAGAGTGCCTTTTGATTTTGTACAAGGTCTCTGGCAAGGGCTGGTCTGTTCGTACACTTACGCGCCTAGCCTTGGACGACTGCCCAAT

;



END;

BEGIN MRBAYES;
	Prset statefreqpr = fixed ( equal );
	Lset nst = 2 rates = equal;
log start filename = L245.log replace;
mcmcp ngen = 10000000 printfreq = 1000 samplefreq = 100
 nchains = 4 savebrlens = yes filename = L245Bayes;
mcmc;
log stop;

END;
BEGIN ASSUMPTIONS;
	TYPESET * UNTITLED   =  unord:  1- 303;

END;

BEGIN CODONS;
	CODESET * UNTITLED   =  universal:  1- 303;


END;

BEGIN MESQUITECHARMODELS;
	ProbModelSet * UNTITLED   =  'Jukes-Cantor':  1- 303;
END;

BEGIN TREES;
	Title L245tree;
	ID 0174bf34e3c119;
	LINK Taxa = Taxa;
	TRANSLATE
[0] 		1 Osmunda_regalis_R10,
[1] 		2 Osmunda_japonica_J1J6J7J8,
[2] 		3 Osmunda_japonica_J2J3J4J5,
[3] 		4 Osmunda_regalis_R13aR14R15R16R17R18KH,
[4] 		5 Osmunda_regalis_R13b,
[5] 		6 Osmunda_lancea_L1,
[6] 		7 Osmunda_regalis_R5,
[7] 		8 Osmunda_regalis_R6,
[8] 		9 Osmunda_regalis_R7,
[9] 		10 Osmunda_lancea_L2L3,
[10] 		11 Osmunda_regalis_R1R2R3R4,
[11] 		12 Osmunda_regalis_R11R12,
[12] 		13 Osmunda_regalis_R8R9,
[13] 		14 Claytosmunda_claytoniana_CL1CL2;
	TREE con_50_majrule = (14:0.0168655,((2:0.00963,3:0.003193,(6:0.00564,10:0.004783)1.00:0.008839)0.76:0.006269,(1:0.003217,(4:0.003216,5:0.006443)0.99:0.006441,(11:0.003197,12:0.006439,13:0.009687,(7:0.003208,8:0.003282,9:0.006425)0.98:0.00641)0.96:0.006394):0.017132)1.00:0.0168655)[% ] [% ] [%  setBetweenBits = selected ];
	TREE con_50_majrule = (1:0.003217,((2:0.00963,3:0.003193,(6:0.00564,10:0.004783):0.008839):0.006269,14:0.033731):0.017132,(4:0.003216,5:0.006443):0.006441,((7:0.003208,8:0.003282,9:0.006425):0.00641,11:0.003197,12:0.006439,13:0.009687):0.006394);

END;


Begin MESQUITE;
		MESQUITESCRIPTVERSION 2;
		TITLE AUTO;
		tell ProjectCoordinator;
		timeSaved 1600935911183;
		getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa;
		tell It;
			setID 0 4867401334231365391;
		endTell;
		getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters;
		tell It;
			setID 0 1850873819210886460;
			mqVersion 361;
			checksumv 0 3 2784595601 null  getNumChars 303 numChars 303 getNumTaxa 14 numTaxa 14   short true   bits 1152921504606846991   states 15   sumSquaresStatesOnly 98559.0 sumSquares 4.6116860184274299E18 longCompressibleToShort false usingShortMatrix true   NumFiles 1 NumMatrices 1;
			mqVersion;
		endTell;
		getWindow;
		tell It;
			suppress;
			setResourcesState true false 296;
			setPopoutState 300;
			setExplanationSize 0;
			setAnnotationSize 0;
			setFontIncAnnot 0;
			setFontIncExp 0;
			setSize 1574 1125;
			setLocation 946 111;
			setFont SanSerif;
			setFontSize 10;
			getToolPalette;
			tell It;
			endTell;
			setActive;
			desuppress;
		endTell;
		getEmployee  #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord;
		tell It;
			showDataWindow #1850873819210886460 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker;
			tell It;
				getWindow;
				tell It;
					setExplanationSize 30;
					setAnnotationSize 20;
					setFontIncAnnot 0;
					setFontIncExp 0;
					setSize 0 -72;
					setLocation 946 111;
					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;
					toggleReduceCellBorders off;
					toggleAutoWCharNames off;
					toggleAutoTaxonNames off;
					toggleShowDefaultCharNames off;
					toggleConstrainCW on;
					toggleBirdsEye off;
					toggleShowPaleGrid off;
					toggleShowPaleCellColors off;
					toggleShowPaleExcluded off;
					togglePaleInapplicable on;
					togglePaleMissing off;
					toggleShowBoldCellText off;
					toggleAllowAutosize off;
					toggleColorsPanel off;
					toggleLinkedScrolling on;
					toggleScrollLinkedTables off;
				endTell;
				getWindow;
				tell It;
					forceAutosize;
				endTell;
				hideWindow;
				getEmployee #mesquite.charMatrices.AlterData.AlterData;
				tell It;
					toggleBySubmenus off;
				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 16 6 1 1;
					subCosts  10 5 10 10 10 5 5 10 10 10 5 10;
				endTell;
				getEmployee #mesquite.molec.ColorByAA.ColorByAA;
				tell It;
					emphasizeDegeneracy off;
				endTell;
				getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor;
				tell It;
					panelOpen false;
				endTell;
			endTell;
		endTell;
		endTell;
end;