#NEXUS [written Wed May 24 10:22:26 MST 2017 by Mesquite version 3.2 (build 801) at Shannons-iMac.local/192.168.104.246] BEGIN TAXA; TITLE Encelia_farinosa_D22_haplotypes; DIMENSIONS NTAX=27; TAXLABELS Encelia_farinosa_D22hap1 Encelia_farinosa_D22hap2 Encelia_farinosa_D22hap3 Encelia_farinosa_D22hap4 Encelia_farinosa_D22hap5 Encelia_farinosa_D22hap6 Encelia_farinosa_D22hap7 Encelia_farinosa_D22hap8 Encelia_farinosa_D22hap9 Encelia_farinosa_D22hap10 Encelia_farinosa_D22hap11 Encelia_farinosa_D22hap12 Encelia_farinosa_D22hap13 Encelia_farinosa_D22hap14 Encelia_farinosa_D22hap15 Encelia_farinosa_D22hap16 Encelia_farinosa_D22hap17 Encelia_farinosa_D22hap18 Encelia_farinosa_D22hap19 Encelia_farinosa_D22hap20 Encelia_farinosa_D22hap21 Encelia_farinosa_D22hap22 Encelia_farinosa_D22hap23 Encelia_farinosa_D22hap24 Encelia_farinosa_D22hap25 Encelia_farinosa_D22hap26 Encelia_farinosa_D22hap27 ; END; BEGIN CHARACTERS; TITLE Encelia_farinosa_D22_haplotype_alignment; DIMENSIONS NCHAR=306; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Encelia_farinosa_D22hap1 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCACTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGTCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTATCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap2 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCACTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGTCATAATGATTATTGGTAATGAACTT---AATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTATCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap3 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTCTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap4 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTCTCATTGTCCCTTTTTGTAAATATACCATGTGGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap5 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap6 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTATCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap7 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTT---AATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap8 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap9 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGGCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap10 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTACTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap11 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTACTCATGCTGCCGTATTGATTATTGGTAATGAACTT---AATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap12 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTGGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap13 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATATCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap14 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCCTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap15 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCTCCTCTTGAAGCTTCTGTTCTTAGGTATTTCTCATTGTCCCTTTTTGTAAATATACCATGTGGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap16 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap17 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap18 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCTCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap19 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCGTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap20 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCTCGTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap21 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCGCTAGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATCGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCTCGAAAGTTGTCTCCGTCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap22 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCTCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap23 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCCGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap24 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCCGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap25 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAGAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATACCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap26 TTGATCTTTTGTGGTTGATCCTTGATAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAGAAAAGAGAATCCCCTGCGCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCGTTTTGTAAATATACCATGTAGTCATGCTGCCATAATGATTATTGGTAATGAACTT---AATGTTTGTTGATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA Encelia_farinosa_D22hap27 TTGATCTTTTGTGGTTGATCCTTGACAAAGCTGACATGGATAATGATCTTGAAATGGCTAGACATGTTGTGTATGTTCACCAAAAAAGAGAATCCCCTGCCCTTGGGTTTGCCCCTCTTGAAGCTTCTGTTCTTAGGTATTTTTCATTGTCCCTTTTTGTAAATATTCCATGTAGTCATGCTGCCGTAATGATTATTGGTAATGAACTTCTTAATGTTTCTTAATAGGGCATACATCTCAGCTGCCCGAAAGTTGTCTCCATCTATTCCAAGAGAGCTGGAGGAGTATATAGCTACTGCATACTCA ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 306; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 306; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 306; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1495646546443; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 4609174068532134908; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 8889059663238693336; mqVersion 320; checksumv 0 3 1333791725 null getNumChars 306 numChars 306 getNumTaxa 27 numTaxa 27 short true bits 15 states 15 sumSquaresStatesOnly 223221.0 sumSquares 223221.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 434; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1929 858; setLocation 8 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #4609174068532134908 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #4609174068532134908; getWindow; tell It; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1495 786; setLocation 8 23; 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; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #8889059663238693336 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1495 786; setLocation 8 23; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; endTell; setActive; 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.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 8 3 2 2; 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;