#NEXUS [written Mon Jul 23 10:28:05 UYT 2012 by Mesquite version 2.75 (build 564) at Usuario-PC/164.73.56.160] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=13; TAXLABELS Pseudocercospora_basitruncata_CBS111280 Pseudocercospora_norchiensis_UY1436 Pseudocercospora_norchiensis_UY1561 Pseudocercospora_norchiensis_UY1484 Pseudocercospora_norchiensis_UY1528 Mycosphaerella_thailandica_CPC10549 Mycosphaerella_heimii_UY423 Mycosphaerella_heimii_UY322 Mycosphaerella_heimii_CBS_110682 Mycosphaerella_africana_CBS116259 Mycosphaerella_aurantia_UY1382 Mycosphaerella_aurantia_CBS110500 Teratosphaeria_nubilosa_CBS116005 ; END; BEGIN CHARACTERS; TITLE 'Combined_ITS_ACT_EF1_Alignment'; DIMENSIONS NCHAR=984; FORMAT DATATYPE = DNA INTERLEAVE GAP = - MISSING = n; MATRIX Pseudocercospora_basitruncata_CBS111280 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaacaaatcttgttgcttcgggggcgaccctgccggcacttcgtcgccgggcgcccccggaggtctccttaaacactgcatctttgcgtcggagtttaaaa--caaattaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctttggtattccgaagggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtc-tccggctgagctgtctgtctctaagcgttgtggaatttcacgattttcgctt-cggagtgcaggcgg-ccgcggccgttaaatcttt--atacaagg Pseudocercospora_norchiensis_UY1436 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaacacatcttgttgcttcgggggcgaccctgccggcactttgtcgccgggcgcccccggagg--tcttcaaacactgcatcattgcgtcggagttt-aaa--caaattaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctttggtattccgaagggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtc-tccggctgagctgtccgtctctaagcgttgtggaatttaac--tattcgctt-cggagcgcgggcggttcgcggccgttaaatcttt--attcaagg Pseudocercospora_norchiensis_UY1561 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaacacatcttgttgcttcgggggcgaccctgccggcactttgtcgccgggcgcccccggagg--tcttcaaacactgcatcattgcgtcggagttt-aaa--caaattaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctttggtattccgaagggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtc-tccggctgagctgtccgtctccaagcgttgtggaatttaac--tattcgctt-cggagcgcgggcggttcgcggccgttaaatcttt--attcaagg Pseudocercospora_norchiensis_UY1484 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaacacatcttgttgcttcgggggcgaccctgccggcactttgtcgccgggcgcccccggagg--tcttcaaacactgcatcattgcgtcggagttt-aaa--caaattaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctttggtattccgaagggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtc-tccggctgagctgtccgtctctaagcgttgtggaatttaac--tattcgctt-cggagcgcgggcggttcgcggccgttaaatcttt--attcaagg Pseudocercospora_norchiensis_UY1528 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaacacatcttgttgcttcgggggcgaccctgccggcactttgtcgccgggcgcccccggagg--tcttcaaacactgcatcattgcgtcggagttt-aaa--caaattaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctttggtattccgaagggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtc-tccggctgagctgtccgtctctaagcgttgtggaatttaac--tattcgctt-cggagcgcgggcggttcgcggccgttaaatcttt--attcaagg Mycosphaerella_thailandica_CPC10549 ggatcattactgagtgagggcctccgggtccgacctccaaccctttgtgaaccaatcttgttgcttcgggggcgaccctgccgcttcggcggtgc--ggcgcccccggagg--ccatcaaacactgcatcattgcgtcggagtaa-aag--taaatgaaacaaaactttcaacaacggatctcttggttccagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctctggtattccggggggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-tgccgcgcgccttaaagtcttccggctgagctgtccgtctctaagcgttgtggcaac------tattcgctt-cggaggccgggcgg-ccgcggccgttaaatcttt---cacaagg Mycosphaerella_heimii_UY423 ggatcattactgagtgagggctac--ggtccgacctccaaccctttgtgaaccaaacttgttgcttcgggggcgaccctgccgcttcggcggtgc--ggcgcccccggagg--ccattaaacactgcatcattgcgtcggagtaa-aag--taaattaaacaaaactttcaacaacggatctcttggttccagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctctggtattccggggggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtcttccggctgagctgtccgtctctaagcgttgtggcaac------tattcgctt-cggaggtcgggtgg-ccgcggccgttaaatcttt---cacaagg Mycosphaerella_heimii_UY322 ggatcattactgagtgagggctac--ggtccgacctccaaccctttgtgaaccaaacttgttgcttcgggggcgaccctgccgcttcggcggtgc--ggcgcccccggagg--ccattaaacactgcatcattgcgtcggagtaa-aag--taaattaaacaaaactttcaacaacggatctcttggttccagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctctggtattccggggggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtcttccggctgagctgtccgtctctaagcgttgtggcaac------tattcgctt-cggaggtcgggtgg-ccgcggccgttaaatcttt---cacaagg Mycosphaerella_heimii_CBS_110682 ggatcattactgagtgagggctac--ggtccgacctccaaccctttgtgaaccaaacttgttgcttcgggggcgaccctgccgcttcggcggtgc--ggcgcccccggagg--ccattaaacactgcatcattgcgtcggagtaa-aag--taaattaaacaaaactttcaacaacggatctcttggttccagcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctctggtattccggggggcatgcctgttcgagcgtcatttcaccactcaagcctggcttggtattgggcgtcgcgg-ctccgcgcgccttaaagtcttccggctgagctgtccgtctctaagcgttgtggcaac------tattcgctt-cggaggtcgggtgg-ccgcggccgttaaatcttt---cacaagg Mycosphaerella_africana_CBS116259 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaaccaactctgttgcttcgggggcgaccccgccgtttcggcgac----ggcgcccccggagg--tcatcaaacactgcatctttgcgtcggagtcttaaagtaaatttaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccccgtggtattccgcggggcatgcctgttcgagcgtcatttcaccactcaagcctagcttggtattgggcgtcgcgg-ttccgcgcgccttaaagtc-tccggctgagcagttcgtctctaagcgttgtggcatat-----atttcgctg-aagagttcggacggcttttggccgttaaatcttt---cttaagg Mycosphaerella_aurantia_UY1382 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaaccaactctgttgcttcgggggcgaccccgccgtttcggcgac----ggcgcccccggagg--tcatcaaacactgcatctttgcgtcggagtcttaaagtaaatttaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccccgtggtattccgcggggcatgcctgttcgagcgtcatttcaccactcaagcctagcttggtattgggcgtcgcgg-ttccgcgcgccttaaagtc-tccggctgagcagttcgtctctaagcgttgtggcatat-----atttcgctg-aagagttcggacggcttttggccgttaaatcttt---cttaagg Mycosphaerella_aurantia_CBS110500 ggatcattactgagtgagggctca--cgcccgacctccaaccctttgtgaaccaactctgttgcttcgggggcgaccccgccgtttcggcgac----ggcgcccccggagg--tcatcaaacactgcatctttgcgtcggagtcttaaagtaaatttaaacaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccccgtggtattccgcggggcatgcctgttcgagcgtcatttcaccactcaagcctagcttggtattgggcgtcgcgg-ttccgcgcgccttaaagtc-tccggctgagcagttcgtctctaagcgttgtggcatat-----atttcgctg-aagagttcggacggcttttggccgttaaatcttt---cttaagg Teratosphaeria_nubilosa_CBS116005 ggatcattaccgagtgagggcggc--agcccgacctcctaccccatgttttcccaccacgttgcctcgggggcgacccggcccccgcgccgg-----ggccctcgcagaac--ccctcaacggctggatctgtgcgtggagtaatacaa--ccaatcaattaaaactttcaacaacggatctcttggttctggcatcgatgaagaacgcagcgaaatgcgataagtaatgtgaattgcagaattcagtgaatcatcgaatctttgaacgcacattgcgccctctggtattccggagggcatgcctgttcgagcgtcatttcaccactccagccccgcttggtattgggcgccgcggcctccgcgcgcctcaatgtc-tccggccgagccgaccgtctctcagcgttgtggcactact---gtttcgctgacggggaccggtctggcgcgcgccgttaaaccctttcaccaaagg Pseudocercospora_basitruncata_CBS111280 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtaagtgccttccttatccactccagctaa----gctggcgagctgacattatcatacagcatccattgtcggccgaccacgtcaccatgggtatgc--gattc-cttacctcgcgatttccg-agcagtatctgacaagagcgcagtatcatgattggtatgggccagaagg-actcgtttat-catcgt-----tgcgctggc--gacgaggggcaaaatt-tggtggggtgcgagaattttggcgct-------ctcggctccacggc-caatgac-ctcactccatacctccatacccaccgcacattcctcagcttctctgcagcggcggcgacgtacctgtgcaaattgagtgctttactga-------------------------------------------------cgtctcacag Pseudocercospora_norchiensis_UY1436 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtgagtactcccactacctgcgctggaccacg--actggagagctgacattatcaaacagcgtccattgtcggccgaccacgtcaccatgggtatgc--gactc-ttatcctcgaaatgtccg-agcagtatctgacaagagcacagtatcatgattggcatgggccagaagg-actcgtttat-catcgt-----tgcgctggc--gacgaggggcaaaatt-tggtggggtgcgagaattttggcgct--------tcggctccacagc-caatgac-ctcaccccatacccac-------caccacactccgctcgctcttcatatcgacggcgaggtgctctcacgatctgagcatcctgctgagggcattgatgccaattaggcctcataatctgaacatttgctgacgagatgccttacag Pseudocercospora_norchiensis_UY1561 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtgagtactcccactatccgcgcaggaccacg--gctggagagctgacactatcaaacagcatccattgtcggccgaccacgtcaccatgggtatgc--gacac-ttatcctcgaaatgtccg-agcagtatctgacaagagcacagtatcatgattggtatgggccagaagg-actcgtttat-catcgt-----tgcgctggc--gacgaggggcaaaatt-tggtggggtgcgagaattttggcgct--------tcggctccacagc-caatgac-ctcaccccatacccac-------ta-cacactccgctcgttgttc--atcgacggcgaggtgctctcacgatttgagcatcctgctgagggcattgatgcccactcggcctcataatctgaaca-ttgctgacgagatgccttacag Pseudocercospora_norchiensis_UY1484 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtgagtactcccactacctgcgctggaccacg--cctggagagctgacattatcaaacagcatccattgtcggccgaccacgtcaccatgggtatgc--gactc-ttatcctcgaaatgtccg-agcagtatctgacaagagcacagtatcatgattggtatgggccagaagg-actcgtttat-catcgt-----tgcgctggc--gacgaggggcaaaatt-tggtggggtgcgagaattttggcgct--------tcggctccacagc-caatgac-ctcaccccatacccac-------caccacactccgctcgctcttcatatcgccggcgaggtgctctcacaatccaaactgcttgctgagagcgccactggcaactcaaactcatgatctggacaattgctgacgagatgccttatag Pseudocercospora_norchiensis_UY1528 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtgagtactccaactatccgcgctggaccacg--gctggagagctgacactatcaaccagcatccattgtcggccgaccacgtcaccatgggtatgc--gattc-ttatcctcgaaaagtccg-agcagtatctgacaagagcacagtatcatgattggtatgggccagaagg-actcgttcat-catcgt-----tgcgctggc--gacgaggggcaaaatt-tggtggggtgcgagaattttggcgct--------tcggctccacagc-caatgac-ctcaccccatacccac-------caccacactccgctcgctcttcatatcgccggcaaggtgctctcacaatccaaattgcttgctgagagcgccactggcaactcaacctcatgatctggacaattgctgacgagatgccttctag Mycosphaerella_thailandica_CPC10549 gtgcaaggccggtttcgccggtgatgatgcgccacgagctgtcttccgtaagtcatccctccatcaccgccaggcggc---ggcagcgagctgactccatc--acagcatccattgtcggccgaccgcgtcaccatgggtatgc--gatccatcatcctcgagtatgccg-gagcatttctgacaagagcgcagtatcatgattggtatgggccagaagg-actcgttcat-cacctctgcc-caccttggcttggtgaggggcaaaatcatggtggggtgcgagaaatttgcgcttgggcgtttgcggctccaccc--acatgac-ttcatccatcaccgccatg----cttctcaacc--------------atcctcacccacgcgcgccggcacacctcgcatcgaccccg--------------atccccgtccacattcgtagca-ccgctaaccatgtgtcccacag Mycosphaerella_heimii_UY423 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtaagtcatccagtcaccaccgccagacggc---ggcagcgagctgactccatc--ctagcatccattgtcggccggccgcgtcaccatgggtatgc--gatccatcgtcctcgagcatgcc--gagcatttctgacaagagcgcagtatcatgattggtatgggccagaagg-actcgtttatgcacctccggcgtgctctggcttggtgaggggcaaaatcatggtggggtgcgagaaatttgcgcttgggcgtttgcggctccac----gcatgac-ttcatccatcaccgccatg----attctcaacc--------------accctcatcaaca-gcgcccgcgcatctcgcatcggaccca--------------acaccatctcacttcggcgaca-gcgctaacaatatgtcctacag Mycosphaerella_heimii_UY322 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtaagtcatccagtcacgaccgccagacggc---ggcagcgagctgactccatc--ctagcatccattgtcggccggccgcgtcaccatgggtatgc--gatccatcgtcctcgagcatgcc--gagcatttctgacaagagcgcagtatcatgattggtatgggccagaagg-actcgattatgcacctccggcgtgctctggcttggtgaggggcaaaatcatggtggggtgcgagaaatttgcgcttgggcgtttgcggctccac----gcatgac-ttcatccatcaccgccatg----attctcaacc--------------accctcatcaaca-gcgcccgcgcatctcgcatcggaccca--------------acaccatctcacttcggcgaca-gcgctaacaatatgtcctacag Mycosphaerella_heimii_CBS_110682 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtaagtcatccagtcaccaccgccagacggc---ggcagcgagctgactccatc--ctagcatccattgtcggccgaccgcgtcaccatgggtatgc--gatccatcgtcctcgagcatgcc--gagcatttctgacaagagcgcagtatcatgattggtatgggccgaaagg-actcgtttat-cacctccggc-tgctctggcttggtgaggggcaaaatcatggtggggtgcgagaaatttgcgcttgggcgtttgcggctccac----gcatgac-ttcatccatcaccgccatg----attctcaacc--------------acccccatcaaca-gcgcccgcgcatctcgcatcggaccca--------------acaccatctcacttcggcgaca-gcgctaacaatatgtcctacag Mycosphaerella_africana_CBS116259 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtaagtgattcacagaacgcctgccagc------cgaagcgagctgacatccac-cacagcgtccattgtcggccgaccgcgtcaccatgggtatgc--gatcc-tcctccactgacccgcc--gaatacatctaacaagagcgcagtatcatgattggtatgggccagaagg-actcgtttat-caccct---------ttggtgggctgaggggcaaaatt-tggtggggtgcgagaattttggcgcccacttttcctggggattcaacgccatgat-ctcatccatcaccgccaaatggctctctgcaca--------------aacaacaccgac-tctgcccacgaaacacagattctgcaca-----------------cagcatcacatcacaagaacatgactctgacaatctgcacag Mycosphaerella_aurantia_UY1382 gtgcaaggccggtttcgccggtgacgatgcgccacgagctgtcttccgtaagtgattcacagaacgcctgccagc------cgaagcgagctgacatccac-cacagcgtccattgtcggccgaccgcgtcaccatgggtatgc--gatcc-tcctccactgacccgcc--gaatacatctaacaagagcgcagtatcatgattggtatgggccagaagg-actcgtttat-caccct---------ttggtgggctgaggggcaaaatt-tggtggggtgcgagaattttggcgcccacttttcctggggattcaacgccatgat-ctcatccatcaccgccaaatggctctctgcaca--------------aacaacaccgac-tctgcccacgaaacacagattctgcaca-----------------cagcatcacatcacaagaacatgactctgacaatctgcacag Mycosphaerella_aurantia_CBS110500 gtgcaaggcccggttcgcc-gtgacgatgcaccacgagctgtcttccgtaagtgattcacagaacgcctgccagc------cgaagcgagctgacatccac-cacagcgtccattgtcggccgaccgcgtcaccatgggtatgc--gatcc-tcctccactgacccgcc--gaacacatctaacaagagcgcagtatcatgattggtatgggccagaagg-actcgtttat-caccct---------ttggtgggctgaggggcaaaatt-tggtggggtgcgagaattttggcgcccacttttcctggggattcaacgccatgat-ctcatccatcaccgccaaatggctctctgcaca--------------aacaacaccgac-tctgcccacgaaacacagattctgcaca-----------------cagcatcacatcacaagaacatgactctgacaatctgcacag Teratosphaeria_nubilosa_CBS116005 gtgcaaggccggtttcgccggtgacgatgcgccgcgagctgtcttccgtaagttgtacccctgccctgcgatggcttcaatggcatccagctgacaccaag--gcagcgtccattgtcggccgaccgcgccaccatgggtatgcatgatcc-catccctccaaccgaccgctgcaatctctgacaagagcacagtatcatgattggtatgggccagaaaggactcgt--------------------ttgcgtggttggaggggcaatt-tggtgtgtggtgggggt-------------------------gcgac-cgacggcgcttggcctttgcagtcaagcgccatccgcttcc--------------aacatctgccacacctcgttgcaacattttcgttaaatagc-----------------caagcttgcagtaagaa----cccttgctgacataactcacag Pseudocercospora_basitruncata_CBS111280 gaagccgccgaactcggtaagggttcc-ttcaagta Pseudocercospora_norchiensis_UY1436 gaagccgccgaactcggtaagggttcc-ttcaagta Pseudocercospora_norchiensis_UY1561 gaagccgccgaactcggtaagggttcc-ttcaagt- Pseudocercospora_norchiensis_UY1484 gaagccgccgaactcggtaagggttcc-ttcaagta Pseudocercospora_norchiensis_UY1528 gaagccgccgaactcggtaagggttccattcaagta Mycosphaerella_thailandica_CPC10549 gaagccgccgagttgggcaagggctcc-ttcaagta Mycosphaerella_heimii_UY423 gaagccgccgagttgggtaagggttcc-ttcaagta Mycosphaerella_heimii_UY322 gaagccgccgagttgggtaagggttcc-ttcaagta Mycosphaerella_heimii_CBS_110682 gaagccgccgagttgggtaagggttcc-ttcaagta Mycosphaerella_africana_CBS116259 gaagccgccgagttgggtaagggttcc-ttcaagta Mycosphaerella_aurantia_UY1382 gaagccgccgagttgggtaagggttcc-ttcaagta Mycosphaerella_aurantia_CBS110500 gaagccgccgagttgggtaagggttcc-ttcaagta Teratosphaeria_nubilosa_CBS116005 gaagccgccgagttgggtaagggttcc-ttcaagta ; END; BEGIN TREES; Title 'Fig3_NJ_Combined_tree'; LINK Taxa = Taxa; TRANSLATE 1 Pseudocercospora_basitruncata_CBS111280, 2 Pseudocercospora_norchiensis_UY1436, 3 Pseudocercospora_norchiensis_UY1561, 4 Pseudocercospora_norchiensis_UY1484, 5 Pseudocercospora_norchiensis_UY1528, 6 Mycosphaerella_thailandica_CPC10549, 7 Mycosphaerella_heimii_UY423, 8 Mycosphaerella_heimii_UY322, 9 Mycosphaerella_heimii_CBS_110682, 10 Mycosphaerella_africana_CBS116259, 11 Mycosphaerella_aurantia_UY1382, 12 Mycosphaerella_aurantia_CBS110500, 13 Teratosphaeria_nubilosa_CBS116005; TREE nj = ((1:0.03911,((2:0.00667,3:0.00686):0.00356,(4:0.00409,5:0.00944):0.00536):0.02808):0.04353,((6:0.0217,((7:0.0,8:0.00246):0.0020,9:0.00292):0.01889):0.03759,((10:0.0,11:0.0):8.6E-4,12:0.00406):0.07957):0.0046,13:0.17452); END; BEGIN TREES; Title 'Maximum_parsimony_Combined_tree'; LINK Taxa = Taxa; TRANSLATE 1 Pseudocercospora_basitruncata_CBS111280, 2 Pseudocercospora_norchiensis_UY1436, 3 Pseudocercospora_norchiensis_UY1561, 4 Pseudocercospora_norchiensis_UY1484, 5 Pseudocercospora_norchiensis_UY1528, 6 Mycosphaerella_thailandica_CPC10549, 7 Mycosphaerella_heimii_UY423, 8 Mycosphaerella_heimii_UY322, 9 Mycosphaerella_heimii_CBS_110682, 10 Mycosphaerella_africana_CBS116259, 11 Mycosphaerella_aurantia_UY1382, 12 Mycosphaerella_aurantia_CBS110500, 13 Teratosphaeria_nubilosa_CBS116005; TREE MajRule = (13,(1,((2,(4,5)),3)),((6,((7,8),9)),((10,11),12))); END; begin paup; default lscores longfmt = yes; END; BEGIN LABELS; CHARGROUPLABEL ITS1; CHARGROUPLABEL Actin1; CHARGROUPLABEL EF1; END; BEGIN SETS; CHARSET ITS = 1 - 474; CHARSET Actin = 475 - 701; CHARSET EF = 702 - 984; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 984; END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 984; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 984; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1343050085671; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 4060501394413879062; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 2414493273501417876; mqVersion 275; checksumv 0 3 620506936 null getNumChars 984 numChars 984 getNumTaxa 13 numTaxa 13 short true bits 1152921504606846991 states 15 sumSquaresStatesOnly 244526.0 sumSquares -7.194230188746725E21 longCompressibleToShort false usingShortMatrix true 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 700 464; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #4060501394413879062 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #4060501394413879062; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 397; setLocation 8 8; 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 #4060501394413879062 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1220.1342896190775.7809315999366975302; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 397; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.reroot; 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; setTree '(13:0.08726,((1:0.03911,((2:0.00667,3:0.00686):0.00356,(4:0.00409,5:0.00944):0.00536):0.02808):0.04353,((12:0.00406,(10:0.0,11:0.0):8.6E-4):0.07957,(6:0.0217,(9:0.00292,(7:0.0,8:0.00246):0.0020):0.01889):0.03759):0.0046):0.08726);'; 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; toggleWhiteEdges 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; makeTreeWindow #4060501394413879062 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 2; toggleUseWeights off; endTell; setAssignedID 1250.1342896236341.847431313674427012; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 600 397; setLocation 8 8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.reroot; endTell; 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; setTree '(13,((1,(3,(2,(4,5)))),((12,(10,11)),(6,(9,(7,8))))));'; 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; toggleWhiteEdges 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; endTell; end;