#NEXUS [written Sat Aug 23 14:24:31 CDT 2014 by Mesquite version 2.75 (build 564) at rachel-coburns-macbook-pro.local/10.0.1.17] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=7; TAXLABELS Petunia_hybrida_KC14017 Nicotiana_benthamiana_V0.4.2._Scf51239 Solanum_lycopersicum_NM001247479 Solanum_tuberosum_AF449422 Iochroma_cyaneum_GU595064 Iochroma_calycinum_KJ094357 Iochroma_calycinum_JN593314_ ; END; BEGIN CHARACTERS; TITLE DFR_Alignment; DIMENSIONS NCHAR=2112; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Petunia_hybrida_KC14017 ATGGCAAGTGAAGCAGTTCATGCC------------CCTTCACCTCCGGTGGCAGTGCCGACAGTTTGCGTCACTGGAGCTGCTGGATTTATTGGCTCTTGGCTTGTCATGAGACTCCTTGAACGCGGTTACAATGTTCACGCTACTGTTCGTGATCCTGAGAACAAGAAGAAGGTGAAACATCTGCTGGAACTGCCAAAGGCTGATACGAACTTAACACTGTGGAAAGCGGACTTGACAGTAGAAGGAAGCTTTGACGAGGCCATTCAAGGCTGTCAAGGAGTATTTCATGTAGCAACACCTATGGATTTCGAGTCCAAAGACCCTGAGAATGAAGTAATCAAGCCAACAGTCCGGGGAATGCTAAGCATCATTGAATCATGTGCTAAAGCAAACACAGTGAAGAGGCTGGTTTTCACTTCATCTGCTGGAACTCTCGATGTGCAAGAGCAACAAAAACTTTTCTATGACCAGACCAGCTGGAGCGACTTGGACTTCATATATGCTAAGAAGATGACAGGATGGATGTATTTTGCTTCCAAGATACTGGCAGAGAAAGCCGCAATGGAAGAAGCTAAAAAGAAGAACATTGATTTCATTAGCATCATACCACCACTGGTTGTTGGTCCATTCATCACACCTACATTTCCCCCTAGTTTAATCACTGCCCTTTCACTAATTACTGGGAATGAAGCTCATTACTGCATCATTAAACAAGGTCAATATGTGCATTTGGATGATCTTTGTGAGGCTCACATATTCCTGTATGAGCACCCCAAGGCAGATGGAAGATTCATTTGCTCGTCCCACCATGCTATCATCTACGATGTGGCTAAGATGGTCCGAGAGAAATGGCCAGAGTACTATGTTCCTACTGAG---TTTAAAGGGATCGATAAAGACCTGCCAGTGGTGTCTTTTTCATCAAAGAAGCTGACAGATATGGGTTTTCAGTTCAAGTACACTTTGGAGGATATGTATAAAGGGGCCATCGATACTTGTCGACAGAAGCAGCTGCTTCCCTTTTCTACCCGAAGTGCTGAAGACAATGGACATAACCGAGAAGCCATTGCCATTTCTGCTCAAAACTATGCAAGTGGCAAAGAGAATGCACCAGTTGCAAATCATACAGAAATGTTAAGCAATGTTGAAGTCTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Nicotiana_benthamiana_V0.4.2._Scf51239 ATGGCAAGTGAAGCT---CATGCAGCTGTTCATACCTCTTCTCCTCCG---GCAACGCCAACAGTTTGCGTCACTGGAGCTGCTGGATTTATTGGCTCTTGGCTTGTGATGAGACTCATTGAACGTGGTTATAATGTTCACGCTACTGTTCGTGATCCTGAGAACAACAAGAAGGTCAAGCATCTATTGGAATTGCCAAAAGCTGACACGAACTTAACGCTGTGGAAAGCGGACTTGTCAGTGGAAGGAAGTTTTGATGAAGCCATTCAAGGCTGTCAAGGGGTATTTCATGTGGCAACACCTATGGATTTCGAGTCCAAGGATCCTGAGAATGAAGTAATTAAACCAACAGTCAGGGGAATGTTGAGCATCATAGAATCATGTGCTAAAGCAAACACAGTGAAGAGGCTGGTTTTCACTTCATCTGCTGGAACTCTCGATGTCCAAGAGCACCAAAAACTCTTCTACGACGAGACCAGCTGGAGCGACTTGGACTTTATATATGCTAAGAAGATGACAGGATGGATGTATTTTGTTTCTAAGATACTGGCAGAGAAGGCCGCAATGGAAGCAGCTAAACAGAATAACATTGATTTTATTAGCATCATACCGCCGCTGGTTGTTGGTCCATTCCTCACGCCTACATTCCCACCTAGCTTAATCACTGCACTTTCACTAATTACTGGTAATGAAACTCACTACTGCATCATTAAACAAGGTCAATATGTGCATTTGGATGATCTTTGTGAGGCACATATTTTCCTATATGAGCACCCAAAGGCAGAGGGAAGATTCATCTGCGCATCCCATCATGCGATCATCTATGATGTGGCAAAGATGGTCCGAGAGAAATGGCCGGAGTACTACATCCCTACTGAGTGGTTTAAAGGTATCGATAAGGACTTGCCTGTGGTGTATTTTTCATCAAAGAAGCTGATGGATATGGGGTTTCAATTCAAGTACACTTTGGAGGATATGTATAAAGGGGCCATTGAGACTTGTCGACAGAAACAGTTGCTTCCCTTTTCTACCCAAAGCACAACAGCTAATGGACGTGACAAAGAAGCCATTCCCCTTTCTGCTGAAAACTATGCAAGTGGCAAGGAGAATTCACCAGTTGCAAATGGAACAGGAAAGTCAACCAATGGTGAAATCTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Solanum_lycopersicum_NM001247479 ATGGCAAGTGAAGCT---CATGCAGTTGTTGATGCCCACTCTCCTCCG---AAGACGACAACGGTTTGGGTCACAGGAGGAGCTGGATTTATCGGCTCTTGGCTTGTCATGAGACTCCTTGAACGCGGTTATAATGTCCACGCTACTGTTCGTGATCCTGAGAACCAGAAGAAGGTGAAACATCTGTTGGAATTGCCAAAAGCTGATACAAACTTAACGCTGTGGAAAGCTGACTTGGCAGTGGAAGGAAGCTTTGATGAAGCCATTCAAGGCTGTCAAGGAGTATTTCATGTGGCTACACCCATGGATTTCGAGTCCAAGGATCCAGAGAACGAAGTAATCAAACCAACAGTCAGGGGAATGTTAAGTATCATAGAATCATGTGCTAAAGCTAACACAGTGAAGAGGCTGGTTTTCACTTCATCTGCTGGAACTCTTGATGTCCAAGAGGACCAAAAACTCTTCTATGACGAGACCAGCTGGAGCGATTTGGACTTCATATATGCTAAGAAGATGACAGGCTGGATGTATTTTGTTTCCAAGATACTGGCAGAGAAGGCTGCAATGGAAGAAGCTAGAAAGAATAACATTGATTTCATTAGCATCATACCACCACTGGTTGTTGGTCCATTCATCACATCTACGTTCCCACCAAGCTTAATCACTGCCCTTTCACTAATTACC---------GCTCACTACGGCATCATTAAACAAGGTCAATATGTGCATTTGGATGATCTTTGTGAGGCTCATATATTCCTGTATGAGCACCCCAAGGCAGAGGGAAGATTCATTTGCTCATCCCATCATGCTATCATCTACGATGTGGCTAAGATGGTGCGACAGAAATGGCCAGAGTACTATGTTCCTACTGAG---TTTAAGGGTATCGATAAGGACTTGGCCCTAGTGTCTTTTTCATCAAAGAAGCTTATGGATATAAAATTTCAATTCAAACACACTTTGGAGGATATGTATAAAGGGGCCATTGAGACTTGCCGACAGAAGCAATTGCTTCCCTTTTCTACCCGAAGCACTGCAGACAATGGAAAAGACAAAGAAGCAATTCCCATTTCTACTGAAAACTATTCAAGTGGCAAGGAGAATGCACCAGTTGCCAATTGTACAGGGAAGTTTACCAATGGTGAAATCTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Solanum_tuberosum_AF449422 ATGGCAAGTGAAGTT---CATGCAGTTGTTGATGCCCATTCTCCCCCG---AAGACGCCAACGGTTTGCGTCACAGGAGCAGCTGGATTTATCGGCTCTTGGCTTGTCATGAGACTCCTTGAACGCGGTTATAATGTCCATGCTACTGTTCGTGATCCTGAGAACCAGAAGAAGGTGAAACATCTGTTGGAATTGCCAAAAGCTGATACAAACTTAACGCTGTGGAAAGCAGACTTGGCAGTGGAAGGAAGCTTTGATGAAGCCATTAAAGGTTGTCAAGGAGTATTTCATGTGGCTACACCGATGGATTTCGAGTCCAAGGATCCAGAGAACGAAGTAATTCAACCAACAGTCAGGGGAATGTTAAGTATCATAGAATCATGTGCTAAAGCTAAAACAGTGAAGAGGCTGGTTTTCACTTCATCTGCTGGAACTCTTGATGTCCAAGAGGACCAAAAACTCTTCTATGACGAGACCAGCTGGAGCGATTTGGACTTCATATATGCTAAGAAGATGACAGGATGGATGTATTTTGTTTCCAAGATACTGGCAGAGAAGGCTGCAATGGAAGAAGCTAAAAAGAACAACATTAATTTCATTAGCATCATACCACCACTGGTTGTTGGTCCATTCATCACACCTACGTTCCCACCTAGCTTAATCACTGCCCTTTCACTAATTACCGGGAATGAAGCTCACTACGGCATCATTAAACAAGGTCAATATGTGCATTTGGATGATCTTTGTGAGGCTCATATATTCCTGTATGAGCACCCCAAGGCAGAGGGAAGATTCATTTGCTCATCTCATCATGCTATCATCTACGATGTGGCTAAGATGGTGCGACAGAAATGGCCAGAGTACTATGTTCCTACTGAG---TTTAAGGGTATCGATAAGGACTTGCCCATAGTGTCTTTTTCATCAAAGAAGCTTATGGACATGGGGTTTCAATTCAAATACACTTTGGAGGATATGTATAAAGGGGCCATTGAGACTTGCCGACAGAAGCAGTTGCTTCCTTTTCATACCCGAAGCACTGCAGCCAATGGAAAAGACAAAGAAGCAATTCCCATTTTTACTGAAAACTATTCAAGTGGCAAGGAGAATGCACCAGTTGCCAATTGTACAGGAAAGTTTACCAATGGTGAAATTTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Iochroma_cyaneum_GU595064 ATGGCAAGTGAAGCT---CATGCAGTTGTTGATGCCCCTTCTCCA------GTGGGGTGGACGGTTTGTGTCACTGGAGCAGCTGGATTTATTGGTTCTTGGCTTGTCATGAGACTCCTTGAACGCGGTTATAATGTCCATGCTACTGTTCGTGATCCTGAAAACAAGAAGAAGGTGAAACATCTGTTGGAATTGGCAAAAGCTGATACAAACTTAACGCTGTGGAAAGCGGACTTAACAGTGGAAGGAAGCTTTGATGAAGCCATTCAAGGCTGTCAAGGAGTATTTCATGTGGCTACACCTATGGATTTCGAGTCCAACGACCCTGAGAACGAAGTAATTAAACCAACACTCAGGGGAATGTTAAGCATCATAGAATCATGTGCTAAAGCTAACACAGTGAAGAGGCTGGTTTTTACTTCATCTGCTGGAACTCTTGATGTCCAAGAGCACCAAAAACTCTTCTATGACGAGACCAGCTGGAGCGACTTGGACTTCATATATGCTAAGAAGATGACAGGATGGATGTATTTTGTTTCCAAGATACTGGCAGAGAAAGCTGCAATGGAAGAAGCTAAAAAGAATAACATTGATTTCATTAGCATCATACCACCACTGGTTGTTGGTCCATTCGTCACACCAACGTTCCCACCAAGCTTAATCACTGCCCTTTCAATAATTACCGGGAATGAAGCTCATTACTGCATCATTAAACAAGGCCAATATGTGCATTTGGATGATCTTTGTGAGGCTCATATATTCCTGTATGAGCACCCCAAGGCTGAGGGACGATTCATTTGCTCGTCCCATCATGCTATCATCTACGATGTGGCTAAGATGGTGCGAGAAAAATGGCCAGAGTACTATGTTCCTACTGAG---TTTAAAGGCATTGATAAGGACTTGCCCATAGTATCTTTTTCGTCAAAGAAGCTAATGGATATGGGGTTTCAATTCAAATACACTTTGGAGGATATGTATAAAGGGGCCATTGAGACTTGCCGACAGAAGCAGTTGCTTCCCTTTTCTACCCGAAGCACTGCAGACAACGGACAAAACAAAGAAGCCATTCCCATTTCTACTGAAAACTATGCAAGTGGCAAAGAGAATGCACCAGTGGCAAATCGTACAGGAAAGTTAATCAATAGAGAAATCTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Iochroma_calycinum_KJ094357 ATGGCAAGTGAAGCT---CATGCAGTTGTTGATGCCCCTTCTCCA------GTGGGGGGGACGGTTTGCGTCACTGGAGCAGCTGGATTTATTGGTTCTTGGCTTGTCATGAGACTCCTTGAACGCGGTTATAATGTCCATGCTACTGTTCGTGATCCTGAAAACAAGAAGAAGGTGAAACATCTGTTGGAATTGCCAAAAGCTGATACAAACTTAACGCTGTGGAAAGCGGACTTAACAGTGGAAGGAAGCTTTGATGAAGCCATTCAAGGCTGTCAAGGAGTATTTCATGTGGCTACACCTATGGATTTCGAGTCCAACGACCCTGAGAACGAAGTAATTAAACCAACAGTCAGGGGAATGTTAAGCATCATAGAATCATGTGCTAAAGCTAACACAGTGAAGAGGCTGGTTTTTACTTCATCTGCTGGAACTCTTGATGTCCAAGAGCACCAAAAACTCTTCTATGACGAGACCAGCTGGAGCGACTTGGACTTCATATATGCTAAGAAGATGACAGGATGGATGTATTTTGTTTCCAAGATACTGGCAGAGAAAGCTGCAATGGAAGAAGCTAAAAAGAATAACATTGATTTCATTAGCATCATACCACCACTGGTTGTTGGTCCATTCATCACACCTACGTTCCCACCTAGCTTAATCACTGCCCTTTCAATAATTACCGGC---------------------------------CAATATGTGCATTTGGATGATCTTTGTGAGGCTCATATATTCCTGTATGAGCACACCAAGGCAGAGGGAAGATTCATTTGCTCGTCCCATCATGCTATCATCTACGATGTGGCTAAGATGGTGCGAGAAAAATGGCCAGAGTACTATGTTCCTACTGAG---TTTAAAGGCATTGATAAGGACTTGCCCATAGTATCTTTTTCGTCAAAGAAGCTAATGGATATGGGGTTTCAATTCAAATACACTTTGGAGGATATGTATAAAGGGGCCATTGAGACTTGCCGACAGAAGCAGTTGCTTCCCTTTTCTACTGGAAGCACTGCAGACAACGGACAAAACAAAGAAGCCATTCCCATTTCTACTGAAAACTATGCAAGTGGCAAAGAGAATGCACCAGTTGCAAATCGTACAGGAAAGTTAATCAACGGCGAAATCTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Iochroma_calycinum_JN593314_ ATGGCAAGTGAAGCT---CATGCAGTTGTTGATGCCCCTTCTcca------GTGGGGGGGACGGTTTGCGTCACTGGAGCAGCTGGATTTATTGGTTCTTGGCTTGTCATGAGACTCCTTGAACGCGGTTATAATGTCCATGCTACTGTTCGTGATCCTGAAAACAAGAAGAAGGTGAAACATCTGTTGGAATTGCCAAAAGCTGATACAAACTTAACGCTGTGGAAAGCGGACTTAACAGTGGAAGGAAGCTTTGATGAAGCCATTCAAGGCTGTCAAGGAGTATTTCATGTGGCTACACCTATGGATTTCGAGTCCAACGACCCTGAGAACGAAGTAATTAAACCAACAGTCAGGGGAATGTTAAGCATCATAGAATCATGTGCTAAAGCTAACACAGTGAAGAGGCTGGTTTTTACTTCATCTGCTGGAACTGTTGATGTCCAAGAGCACCAAAAACTCTTCTATGACGAGACCAGCTGGAGCGACTTGGACTTCATATATGCTAAGAAGATGACAGGATGGATGTATTTTGTTTCCAAGATACTGGCAGAGAAAGCTGCAATGGAAGAAGCTAAAAAGAATAACATTGATTTCATTAGCATCATACCACCACTGGTTGTTGGTCCATTCATCACACCTACGTTCCCACCTAGCTTAATCACTGCCCTTTCAATAATTACCGGGAATGAAGCTCATTACTGCATCATTAAACAAGGCCAATATGTGCATTTGGATGATCTTTGTGAGGCTCATATATTCCTGTATGAGCACACCAAGGCAGAGGGAAGATTCATTTGCTCGTCCCATCATGCTATCATCTACGATGTGGCTAAGATGGTGCGAGAAAAATGGCCAGAGTACTATGTTCCTACTGAG---TTTAAAGGCATTGATAAGGACTTGCCCATAGTATCTTTTTCGTCAAAGAAGCTAATGGATATGGGGTTTCAATTCAAATACACTTTGGAGGATATGTATAAAGGGGCCATTGAGACTTGCCGACAGAAGCAGTTGCTTCCCTTTTCTACTGGAAGCACTGCAGACAACGGACAAAACAAAGAAGCCATTCCCATTTCTACTGAAAACTATGCAAGTGGCAAAGAGAATGCACCAGTTGCAAATCGTACAGGAAAGTTAATCAACGGCGAAATCTAG------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ ; END; BEGIN TREES; Title DFR_Tree; LINK Taxa = Taxa; TRANSLATE 1 Petunia_hybrida_KC14017, 2 Nicotiana_benthamiana_V0.4.2._Scf51239, 3 Solanum_lycopersicum_NM001247479, 4 Solanum_tuberosum_AF449422, 5 Iochroma_cyaneum_GU595064, 6 Iochroma_calycinum_KJ094357, 7 Iochroma_calycinum_JN593314_; TREE 'DFR Tree+' = (1:0.0295155,(2:0.060068,((3:0.018125,4:0.015913):0.025766,(5:0.010458,(7:0.001757,6:8.97E-4):0.00422):0.021744):0.018498):0.0295155); END; BEGIN CODONS; CODONPOSSET * UNTITLED = N: 1159- 2112 , 1: 1 - 1156\3, 2: 2 - 1157\3, 3: 3 - 1158\3; CODONPOSSET CodonPositions = N: 1159- 2112 , 1: 1 - 1156\3, 2: 2 - 1157\3, 3: 3 - 1158\3; CODESET * UNTITLED = universal: 1 - 2112; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 2112; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 2112; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1408821871494; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 9128265183245730297; tell It; setSelected 1; setDefaultOrder 4 3 5 6 2 1 0; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 2857641682137022290; mqVersion 275; checksumv 0 3 2001989369 null getNumChars 2112 numChars 2112 getNumTaxa 7 numTaxa 7 short true bits 1152921504606846991 states 15 sumSquaresStatesOnly 173331.0 sumSquares 1.1529215046068476E19 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1 errorReportedDuringRun; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 319; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1272 485; setLocation -8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #2857641682137022290 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 190; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 953 418; setLocation -8 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setActive; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; colorCells #mesquite.molec.ColorByAA.ColorByAA; tell It; emphasizeDegeneracy off; 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; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize off; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; 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 10 5 10 10 10 5 5 10 10 10 5 10; endTell; getEmployee #mesquite.molec.SequenceInfoEditor.SequenceInfoEditor; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;