#NEXUS [written Sun Oct 05 20:50:05 ART 2014 by Mesquite version 2.74 (build 550) at Andres-PC/192.168.100.101] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=27; TAXLABELS Ceratocystis_coerulecens_AY214001 Ceratocystis_douglasii_U75626_T Ceratocystis_laricicola_AF043600 Ceratocystis_polonica_AF043601 Ceratocystis_virescens_AF043603 Ceratocystis_fagacearum_FJ347031 Ceratocystis_norvegica_DQ318209_T Ceratocystis_adiposa_AF043606 Thielaviopsis_ceramica_EU245022_T Ceratocystis_bhutanensis_AY528960 Ceratocystis_inquinans_EU588588 Ceratocystis_microbasis_EU588594 Ceratocystis_sumatrana_EU588590 Ceratocystis_omanensis_DQ074743 Ceratocystis_moniliformopsis_AY528999 Ceratocystis_sublaevis_FJ151430_T Ceratocystis_tribiliformis_AY529004 Ceratocystis_oblonga_EU245021 Ceratocystis_savannae_GU078454 Ceratocystis_moniliformis_AF043597 BAFC4488 BAFC4489 BAFC4490 BAFC4491 BAFC4492 BAFC4493 BAFC4494 ; END; BEGIN CHARACTERS; TITLE 'Matrix in file "ITS_Ceratocystis_decorticans_matrix.nexus"'; DIMENSIONS NCHAR=418; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Ceratocystis_coerulecens_AY214001 ccatatgtgaacatac-cttttt-----------agctgctt-tggcaggcttgggtttgaaaaaaacaagt--ctgccggcagtatataaaaaacactctttaatat-ttctagagaatttattttcattgctgagtggcat-taacataataagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgatacgtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctggcagtattctgccaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtcttttttgtttgcgggccgccgaaatgcatcggctgttatatttgcagcttccctgtgtagta Ceratocystis_douglasii_U75626_T ccatatgtgaacatac-cctttt-----------agctgctt-tggcaggcttgg------taaaaacaagt--ctgccggtagtatataaaaaa-actctttaatat-ttctacagaattta-tttcattgctgagtggcataaaacataataagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgatacgtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctggcagtattctgccaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcatc--------ttgcgggccgccgaaatgcatcggctgttatatttgcagcttccctgtgtagta Ceratocystis_laricicola_AF043600 ccatatgtgaacatac-ctttttt----------agctgctt-tggcaggtcttg------gtaaaacaagt-cctgccggtagtatttagaaaa-actctttaatat-ttctagagaatttatattcattgctgagtggcat-taacataataagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgatacgtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctggcagtattctgcca-gcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcatc--------ttgcgggccgccgaaatgcatcggctgttgaatttgcagcttccctgtgtagta Ceratocystis_polonica_AF043601 ccatatgtgaacatac-ctttttt----------agctgctt-tggcaggtcttg------gtaaaacaagt-cctgccggtagtatttagaaaa-actctttaatat-ttctagagaatttatattcattgctgagtggcat-taacataataagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgatacgtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctggcagtattctgcca-gcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcatc--------ttgcgggccgccgaaatgcatcggctgttgaatttgcagcttccctgtgtagta Ceratocystis_virescens_AF043603 ccatatgtgaacatac-ctatt------------agctgctt-tggcaggcttgg-------taacacaagt--ctgccggtagtattttaaa---actcttttttttattctaaagaatt---attcattgctgagtggcat-taacataataagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgatacgtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctggcagtattctgccaggcatgcctgtccgagcgtcatttcaccactcaagctccgcttggtgttggaggacctgttgtttt-----caacaggccaccgaaatgcatcggctgttatacttgcagcttccctgtgtagta Ceratocystis_fagacearum_FJ347031 ccatttgtgaacatac-catttttttttctctaatactgctt-tggcagggacttctttcttcaggggatgtttctgccagtagtatttacaa---actctttttaat-ttctagagaatt---attcattgctgagttgcatttaaca-aaatagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagccttgcttggtgttggaggaccccgcttgtcac---aagcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgcgtagta Ceratocystis_norvegica_DQ318209_T ccatttgtgaacatac-cttttct---------gtactgctt-tggcagatgtcttc-----------ggatgtctgccggtagtatttacaa---actc-ttttaat-ttctagagaatt---attcattgctgagttgcatttaac--aaatagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagcttcgcttggtgttggaggtcccgctgtcac-----aagcgggccgccgaaatgcatcggctgtagt-tcaagagcttccctgcgtagta Ceratocystis_adiposa_AF043606 ccatttgtgaacatac-ctatctt----------tactgctt-tggcgtggtccttc-----------gggattgtgccggtagtatttacaa---actc-ttttaat-ttctagagaatt---attcattgctgagttgcatttaac--aaatagttaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctggcagtattctgccaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgctgtc-------aagcgggccgccgaaatgcatcggctgtagtatttgcagcttccctgcgtagta Thielaviopsis_ceramica_EU245022_T ccatttgtgaatttac-caaacat---------gaactgcat-cggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgcatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_bhutanensis_AY528960 ccatttgtgaatttac-caaacat---------gaactgcat-cggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgattagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgcatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_inquinans_EU588588 ccatttgtgaatttac-caaacat---------gaactgcat-cggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgaatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_microbasis_EU588594 ccatttgtgaatttac-caaacat---------gaactgcat-cggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgaatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_sumatrana_EU588590 ccatttgtgaatttac-caaacat---------gaactgcat-cggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgaatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_omanensis_DQ074743 ccatttgtgaatttac-caaacat---------gaactgcat-tggcgggtct--------------------cccgccggcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtaccattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcactactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgcatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_moniliformopsis_AY528999 ccatttgtgaatttac-caaacat---------gaactgcatatggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctatgcttggtgttggaggacctgtgctat------gcgcgggcctctgaaatgtatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_sublaevis_FJ151430_T ccatttgtgaatttac-caaacat---------gaactgcatacggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgtatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_tribiliformis_AY529004 ccatttgtgaatttac-caaacat---------gaactgcatacggcgggtct--------------------cccgccagcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgtatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_oblonga_EU245021 ccatttgtgaatttac-caaacat---------gaactgcat-tggcggggtctc------------------cccgccggcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgcatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_savannae_GU078454 ccatttgtgaatttac-caaacat---------gaactgcat-tggcggggtctc------------------cccgccggcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgcatcggctgtgttacatgcagtttccctgtgtagta Ceratocystis_moniliformis_AF043597 ccatttgtgaatttccacaaacat--------cgaactgcgattggcgggtctcc------------------ccgcccggcagtactcttga---actcgttttta---tataaagaattt--attcattgctgagtagcattttata-aatgtattaaaactttcaacaacggatctcttggctctagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcccagcagtactctgctgggcatgcctgtccgagcgtcatttcaccactcaagctctgcttgttgttggagagcctgtgctat------gcgcgggcctctgaaatgcatcggctgtgttacatgcagtttccctgtgtagta BAFC4488 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta BAFC4489 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta BAFC4490 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta BAFC4491 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta BAFC4492 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta BAFC4493 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta BAFC4494 ccatttgtgaacttac-cttcttg----------tactgctt-tggtggaactctttt----------ggggtttcgccggtagtatttaaaa---actc-tttatat-ttctatagaatt---attcattgctgagttgcatttaata-aataagttaaaactttcaacaacggatctcttggctctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgcctagcagtattctgctaggcatgcctgtccgagcgtcatttcaccactcaagctctgcttggtgttggaggacccgcgtt--------atgcgggccaccgaaatgcatcggctgtagtatttgcagcttccctgtgtagta ; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 418; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 418; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 418; END; BEGIN TREES; Title 'Trees from "its_ceratocystis_decorticans_mltree.tre"'; LINK Taxa = Taxa; TRANSLATE 24 Ceratocystis_coerulecens_AY214001, 25 Ceratocystis_douglasii_U75626_T, 27 Ceratocystis_laricicola_AF043600, 26 Ceratocystis_polonica_AF043601, 23 Ceratocystis_virescens_AF043603, 22 Ceratocystis_fagacearum_FJ347031, 21 Ceratocystis_norvegica_DQ318209_T, 20 Ceratocystis_adiposa_AF043606, 6 Thielaviopsis_ceramica_EU245022_T, 7 Ceratocystis_bhutanensis_AY528960, 4 Ceratocystis_inquinans_EU588588, 3 Ceratocystis_microbasis_EU588594, 5 Ceratocystis_sumatrana_EU588590, 8 Ceratocystis_omanensis_DQ074743, 12 Ceratocystis_moniliformopsis_AY528999, 1 Ceratocystis_sublaevis_FJ151430_T, 2 Ceratocystis_tribiliformis_AY529004, 11 Ceratocystis_oblonga_EU245021, 10 Ceratocystis_savannae_GU078454, 9 Ceratocystis_moniliformis_AF043597, 16 BAFC4488, 19 BAFC4489, 15 BAFC4490, 13 BAFC4491, 18 BAFC4492, 17 BAFC4493, 14 BAFC4494; TREE 'PHYLIP 1+' = ((((12:0.004642,((7:0.002817,(6:0.0,((1:0.0,2:0.0)0.6500:0.0,(3:0.0,(4:0.0,5:0.0)0.2200:0.0)0.6500:0.002795)0.2900:0.002794)0.0200:0.0)0.5700:0.002932,(8:0.00566,(9:0.014696,(10:0.0,11:0.0)0.9400:0.00866)0.2100:0.0)0.4000:0.002682)0.5400:0.010353)1.0000:0.162198,(13:0.0,(14:0.0,(15:0.0,(16:0.0,(17:0.0,(18:0.0,19:0.0)0.1400:0.0)0.0400:0.0)0.0200:0.0)0.0000:0.0)0.0900:0.0)0.9900:0.027424)0.6000:0.021302,(22:0.026498,(20:0.023943,21:0.036743)0.2900:0.00316)0.8900:0.032098)0.8200:0.011672,(23:0.053244,((24:0.005546,25:0.009489)0.9600:0.009373,(26:0.0,27:0.0)0.9900:0.012495)0.7400:0.009798)0.8200:0.030915)[% ] [%unrooted = on ]; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1412553005435; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 333022592598998231; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 7722299052311278654; mqVersion 274; checksumv 0 2 3947767007 null getNumChars 418 numChars 418 getNumTaxa 27 numTaxa 27 short true bits 1152921504606846991 states 15 sumSquaresStatesOnly 248313.0 sumSquares -4.443359478754788E21 NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1366 650; setLocation -8 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #333022592598998231 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #333022592598998231; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1266 583; setLocation -8 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #333022592598998231 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 935.1412552980532.6826588958990202110; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1266 583; setLocation -8 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; endTell; setEdgeWidth 6; orientUp; setCornerMode Right_Angle 50; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition on; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; showWindow; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; setDigits 4; writeAsPercentage off; toggleCentred on; toggleHorizontal on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocStrings.DrawTreeAssocStrings; tell It; setOn on; toggleCentred on; toggleHorizontal on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #7722299052311278654 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 252; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1266 583; setLocation -8 0; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; 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; 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 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;