NEXUS [File created by TreeBASE: 7/26/07 21:10:06] [Matrix accession#: M2541] BEGIN TAXA; TITLE M2541; DIMENSIONS NTAX=55; TAXLABELS Botryosphaeria_dothidea_CMW9075 Botryosphaeria_eucalyptorum_CMW10125 Botryosphaeria_eucalyptorum_CMW11705 Botryosphaeria_lutea_CMW10309 Botryosphaeria_lutea_CMW14071 Botryosphaeria_lutea_CMW14073 Botryosphaeria_lutea_CMW907 Botryosphaeria_lutea_CMW992 Botryosphaeria_obtusa_CMW7774 Botryosphaeria_obtusa_KJ93.56 Botryosphaeria_parva_CMW10122 Botryosphaeria_parva_CMW14029 Botryosphaeria_parva_CMW14030 Botryosphaeria_parva_CMW9071 Botryosphaeria_parva_CMW9078 Botryosphaeria_parva_CMW9081 Botryosphaeria_parva_CMW994 Botryosphaeria_rhodina_CMW10130 Botryosphaeria_rhodina_CMW14114 Botryosphaeria_rhodina_CMW14116 Botryosphaeria_rhodina_CMW9074 Botryosphaeria_ribis_CMW13990 Botryosphaeria_ribis_CMW13991 Botryosphaeria_ribis_CMW14011 Botryosphaeria_ribis_CMW14012 Botryosphaeria_ribis_CMW14016 Botryosphaeria_ribis_CMW14025 Botryosphaeria_ribis_CMW14031 Botryosphaeria_ribis_CMW7054 Botryosphaeria_ribis_CMW7772 Botryosphaeria_stevensii_CMW7060 Botryosphaeria_stevensii_SZ94.6 Diplodia_pinea Fusicoccum_mangiferum_CMW13998 Fusicoccum_mangiferum_CMW14005 Fusicoccum_mangiferum_CMW14102 Fusicoccum_mangiferum_CMW7024 Fusicoccum_mangiferum_CMW7801 Guignardia_philoprina Lasiodiplodia_gonubiensis_CMW14077 Lasiodiplodia_gonubiensis_CMW14078 Mycosphaerella_africana Botryosphaeria_australis_CMW1110 Botryosphaeria_australis_CMW1112 Botryosphaeria_australis_CMW13986 Botryosphaeria_australis_CMW13987 Botryosphaeria_australis_CMW14013 Botryosphaeria_australis_CMW14074 Botryosphaeria_australis_CMW3386 Botryosphaeria_australis_CMW6837 Botryosphaeria_australis_CMW9072 Botryosphaeria_corticola_AY259089 Botryosphaeria_corticola_AY259101 Botryosphaeria_dothidea_CMW14009 Botryosphaeria_dothidea_CMW8000 ; END; BEGIN CHARACTERS; TITLE M2541; DIMENSIONS NCHAR=161; FORMAT DATATYPE = DNA MISSING = ? GAP = - ; MATRIX Botryosphaeria_dothidea_CMW9075 NNNactgattgtccgcat-ctttc-ctgc-----------gcggtcctccgcggccgcccccctccccgggggggtggccagcgcgatctaagatcataa-tatttaaactactt--gcgcagtcttg--actactcccagccttctga---acttcggat Botryosphaeria_eucalyptorum_CMW10125 ggaactgactatccgtac-ttatc-ctgc-----------gcggtcctccgcaccggctcccttt----gggggctggccagcgtgacataagttcataaagacttagtttccct--gtacagtcttg----atcctccatcctttgaa----tttcggat Botryosphaeria_eucalyptorum_CMW11705 ggaactgactatccgtac-ttatc-ctgc-----------gcggtcctccgcaccggctcccttt----gggggctggccagcgtgacataagttcataaagacttagtttccct--gtacagtcttg----atcctccatcctttgaa----tttcggat Botryosphaeria_lutea_CMW10309 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttcg--gggggccggccagcgcgacataagtccatgaagacttagtcttcct--gtacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_lutea_CMW14071 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttcg--gggggccggccagcgcgacataagtccatgaagacttagtcttcct--gtacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_lutea_CMW14073 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttcg--gggggccggccagcgcgacataagtccatgaagacttagtcttcct--gtacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_lutea_CMW907 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttcg--gggggccggccagcgcgacataagtccatgaagacttagtcttcct--gtacggtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_lutea_CMW992 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttcg--gggggccggccagcgcgacataagtccatgaagacttagtcttcct--gtacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_obtusa_CMW7774 ggaactc--tgttcgtaa-tttaa-ctcttttgccgcgaggaggccctc-gcgggccccccc--------------gcgcgctttgttctaagtcacttaagacccggactgcctctgcatatgttcagc--tacctcgttccttctga---acttcggat Botryosphaeria_obtusa_KJ93.56 ggaactc--tgttcgtaa-tttaa-ctcttttcccgcgaggaggccctc-gcgggccccccc--------------gcgcgctttgttctaagtcacttaagacccggactgcctctgcatatgttcagc--tacctcgttccttctga---acttcggat Botryosphaeria_parva_CMW10122 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccataaagacttagtctcccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_parva_CMW14029 ggaactgattatccgtac-ttatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccataaagacttagtctcccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_parva_CMW14030 ggaactgattatccgtac-ttatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccataaagacttagtctcccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_parva_CMW9071 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccataaagacttagtctcccc--acacagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_parva_CMW9078 ggaactgattatccgtac-ttatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccataaagacttagtctcccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_parva_CMW9081 ggaactgattatccgtac-ttatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccataaagacttagtctcccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_parva_CMW994 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--aggggctggccagcgcgatatgattccataaagacttagtctcccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_rhodina_CMW10130 ggaactt--tgttcgtac-tttag-ctct-----------------------cgg------------------------------attctaagcaacttaagacttggacaaccactgcacatgttcagc--tacctcgttccttctga---acttcggat Botryosphaeria_rhodina_CMW14114 ggaactt--tgttcgtac-tttag-ctct-----------------------cgg------------------------------atcctaagcaacttaagacttggacaaccactgcacatgttcagc--taccttgttccttctga---acttcggat Botryosphaeria_rhodina_CMW14116 ggaactt--tgttcgtac-tttag-ctct-----------------------cgg------------------------------atcctaagcaacttaagacttggacaaccactgcacgtgttcagc--taccttgttccttctga---acttcggat Botryosphaeria_rhodina_CMW9074 ggaactt--tatccgtac-tttag-ctct-----------------------cgg------------------------------attctaagcaacttaagacttggacaaccactgcacatgttcagc--tacctcgttccttctga---acttcggat Botryosphaeria_ribis_CMW13990 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccacaaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW13991 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccacaaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW14011 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccacaaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW14012 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccacaaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW14016 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccacaaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW14025 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgatttcatgaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW14031 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttc-g--gggggctggccagcgcgatatgattccatgaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW7054 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccataaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_ribis_CMW7772 ggaactgattatccgtac-taatc-ctgc-----------gcggtcctccgcaccggcgcccttcgg--gggggctggccagcgcgatatgattccataaagacttagtcttccc--acatagtcttg----aacctccaccctttgaa---ttatcggat Botryosphaeria_stevensii_CMW7060 ggaactc--tattcgtaa-tttaa-ctct-ttgccgcgtggaggccctcaaaaagccccccc--------------gtgcgc-ttgttctaagtcactaaagactcagactgactctgcacatgttcagc--tacctcgttccttctga---acttcggat Botryosphaeria_stevensii_SZ94.6 cgaactc--tgttcgcaa-tttaa-ctct-ttgccgcgtggaggccctc-aaaagccccccc--------------gcgcgc-ttgttctaagtcactaaagactcagactgcctctgcacatgttcagc--taccttgttccttctga---acttcggat Diplodia_pinea ggaactc--tgttcgtaa-tttaa-ctcttttgccgcgaggaggccctc-gcgggccccccc--------------gcgcgctttgttctaagtcacttaagactcagactgcctctgcatatgttcagc--tacctcgttccttctga---acttcggat Fusicoccum_mangiferum_CMW13998 ggaactgattatccgtac-ttatctccgc-----------gcggtcctccgcaccggctcccctcga--gggggctggccagcgcgacataagttcacaaagacttagtcttccc--gcacagtcttg----aacctccaccctttgaatatttttcggat Fusicoccum_mangiferum_CMW14005 ggaactgattatccgtac-ttatctccgc-----------gcggtcctccgcaccggctcccctcga--gggggctggccagcgcgacataagttcacaaagacttagtcttccc--gcacagtcttg----aacctccaccctttgaatatttttcggat Fusicoccum_mangiferum_CMW14102 ggaactgattatccgtac-ttatctccgc-----------gcggtcctccgcaccggctcccctcga--gggggctggccagcgcgacataagttcacaaagacttagtcttccc--gcacagtcttg----aacctccaccctttgaatatttttcggat Fusicoccum_mangiferum_CMW7024 ggaactgattatccgtac-ttatctccgc-----------gcggtcctccgcaccggctcccctcga--gggggctggccagcgcgacatgagttcacaaagacttagtcttccc--gcacagtcttg----aacctccaccctttgaata-ttttcggat Fusicoccum_mangiferum_CMW7801 ggaactgattatccgtac-ttatctccgc-----------gcggtcctccgcaccggctcccctcga--gggggctggccagcgcgacatgagttcacaaagacttagtcttccc--gcacagtcttg----aacctccaccctttgaata-ttttcggat Guignardia_philoprina ggaattagtagccccatc-ct-tc-acgcgacccggtttcgacccgggcggccggcgcccccagccctccagggccgccaagcgcg--acatcatcgttattttctgatctgact-gccacggtcccag-a-aattttctg-------------------- Lasiodiplodia_gonubiensis_CMW14077 ggaactt--tattcgtac-tttaa-ctct-----------------------cgg------------------------------attctaagcaactatagacttggacttcccctggacatgttcagc--tacctcgttccttctga---acttcggat Lasiodiplodia_gonubiensis_CMW14078 ggaactt--tattcgtac-tttaa-ctct-----------------------cgg------------------------------attctaagcaactatagacttggacttcccctggacatgttcagc--tacctcgttccttctga---acttcggat Mycosphaerella_africana ----t----ggtcacca--cttac-at----------------------cgaccccgccgtttcgg----------cgacggcgggtcacttgtcgat---gtcgtcgtttgttcc---gtagttcgt----tattatcgg-----------tct------ Botryosphaeria_australis_CMW1110 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccatcctttgaa----tttcggat Botryosphaeria_australis_CMW1112 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccatcctttgaa----tttcggat Botryosphaeria_australis_CMW13986 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_australis_CMW13987 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_australis_CMW14013 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_australis_CMW14074 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccatcctttgaa----tttcggat Botryosphaeria_australis_CMW3386 Ngaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccaccctttgaa----tttcggat Botryosphaeria_australis_CMW6837 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccatcctttgaa----tttcggat Botryosphaeria_australis_CMW9072 ggaactgattatccgtac-tcatc-ctgc-----------gcggtcctccgcaccgacccccgttc---gggggccggccagcgcgacataagtccatgaagacttagtcttccc--gcacggtcttg----aacctccatcctttgaa----tttcggat Botryosphaeria_corticola_AY259089 ggaacgct-aagagatttacttaa-ctct-tcgccgcgaggggaggccctgaaaagggcccgccccc------ctcgcgcgccctgttctaagtcacttcagactcagactgcctctgcacatgtccagc--tacctcgctccttctga---acttcggat Botryosphaeria_corticola_AY259101 ggaacgct-aagagatttacttaa-ctct-tcgccgcgaggggaggccctgaaaagggcccgccccc------ctcgcgcgccctgttctaagtcacttcagactcagactgcctctgcacatgtccagc--tacctcgctccttctga---acttcggat Botryosphaeria_dothidea_CMW14009 ------gattgtccgcat-ctttc-ctgc-----------gcggttctccgcggccgcccccctcccc-ggggggtggccagcgcgatctaagatcataa-tatttaaactactt--gcgcagtcttg--actactcccagccttctga---acttcggat Botryosphaeria_dothidea_CMW8000 ggaactgattgtccgca--ctttc-ctgc-----------gcggtcctccgcggccggcccccctccccggggggtggccagcgcgatctaagatcataa-tatttaaactactt--gcgcagtcttg--actactcccagccttctga---acttcggat ; END; BEGIN CODONS; CODONPOSSET * CodonPositions = N: 1 - 161 ; CODESET * UNTITLED = Universal: all ; END; BEGIN ASSUMPTIONS; OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS ; END;