#NEXUS BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=31; TAXLABELS Caloplaca_stillicidiorum_EU365860 Caloplaca_cerina_EU365861 Caloplaca_aff._crenularia_Canary_Islands Caloplaca_fuscorufa_Ukraine Caloplaca_fuscorufa_EF643514 Caloplaca_fuscorufa_EF643513 Caloplaca_ammiospila_EF643516 Caloplaca_ammiospila_EF643515 Caloplaca_furfuracea_FJ866813 Caloplaca_furfuracea_FJ866811 Caloplaca_scabrosa_Czech_Republic Caloplaca_furfuracea_Austria Caloplaca_sp._aff._scabrosa_Ukraine_1 Caloplaca_sp._aff._scabrosa_Ukraine_2 Caloplaca_crenularia_AF353965 Caloplaca_crenularia_EF643511 Caloplaca_crenularia_Iran Caloplaca_crenularia_Hungary Caloplaca_crenularia_Turkey Caloplaca_crenularia_EF643512 Caloplaca_crenularia_Bulgaria Caloplaca_herbidella_Turkey Caloplaca_herbidella_FJ866799 Caloplaca_herbidella_FJ866807 Caloplaca_herbidella_FJ866805 Caloplaca_coralliza_FJ866796 Caloplaca_coralliza_FJ866794 Caloplaca_crenularia_Crete_2 Caloplaca_ferruginea_FJ866808 Caloplaca_crenularia_Crete_1 Caloplaca_crenularia_Spain ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=558; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Caloplaca_stillicidiorum_EU365860 TTGAGAGGGGGGC-CTCGCGCTCCA--GGGGCTTCG-TGCC---CCGCACCTTTCCACCCTCTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-GCCTA---CCCCCTGGCGCTGGCCCC-CCGCGAGGGAGG-CTCGCGAGCGCCCGCCAGAGGCCCAATTC-AAACCT-----GTTGTATCAGTGCAGTCTGAG-TTTACGAGTAATCAA-TCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGT-ATTCCGAAGGGCATGCCTGTTCGAGCGTCATTACACCCCTCAAGCTCTGCTTGGTATTGGCCGTCCGCCCCCCGTTCCCGGGGGGCG---CGCCCGAAATTCAGTGGCGGTCCAGGTAGACTTCAAGCGCAGTAAACTTTTGTTCGCTTTGGAAGC--CTT------------------------------------------------ Caloplaca_cerina_EU365861 TTGAGAGGGGAGC-CTCGCGCTCCA--GGGGCCTCG-TGCC---CCGCACCTTTCCACCCTTTGT-GTATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-GCTTA---CCCCTCGGCGCCGGCCCC-CTGCGAAGGGGG-CTCGCGAGCGCCCGCCGGAGGCCC-ATCC-AAACCT-----GCTGTATCAGTGCCGTCTGAG-TATACGAGTAATCAA-TCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGT-ATTCCGAAGGGCATGCCTGTTCGAGCGTCATTACACCCCTCAAGCTCTGCTTGGTATTGGGCGTCCGCCCCCCGGGATCGGGGGGCG---CGCCCGAAATTCAGTGGCGGTCCAGGTAGACTTCAAGCGCAGTAAACTTTGGTTCGCTTTGGAAGC--CTTCTGCCTGCGG-CCCCGCCAGCC-AACG----ATCACCCCCAATC-ATT Caloplaca_aff._crenularia_Canary_Islands CTGAAAGGGGGGCTTTCGCGCCCC---GGGG-CTC--TGCC---CCGTACCTTTCCACCCTATGC-GTACCTTCCACTGTTGCTTTGGCGGGCCTCCGGGCTTT-------CCCGGCGCTGGCTC-----------GGG-TCCGCGTGTGCTCGCCAGAGGCCC-ATTA-AAACCT-----GTTTTATCAGTGCAGTCTGAG-TATACATACAATCAA-GTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGT-ATTCCGAAGGGCATGCCTGTTCGAGCGTCATTACACCCCTCAAGCCTCGCTTGGTATTGGGTCCTCGCCCCCTCGCTTCCAGGGGAGCG-CGCCCGAAATTTAGTGGCGGTCCAGGTAGACTTCAAGCGCAGTAAA-TCT-ATCCGCTTCCGAAGC--CTTCTGCCTGCGG-CCTCGCCAGTTGAACC----ATAAACTTTTCAC-GAA Caloplaca_fuscorufa_Ukraine ATGAGAGGGGGGC-TTCGCGCTCCA--GGGG-TTCAC-GCC---CCGCACCTTTCCACCCTGTGT-ATATTTCCCACTGTTGCTTTGGCAGGCCCCCGGGGTTT-----CCCCCGGCGCCGGCTCCC-CTAA-ACCGGGGTTGGCGTGTGCCTGCCAGAGGCCC-ACCTCAAA--TCAATTGTTATATCAGTGTAGTCTGAG-TTGACGAGAAATCAA-ATAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGAAATTCCGAAGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTCTTGGGTGATCGCGGCCCCTAACACAGGGGCGCGACGCCCCAAATTCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAA--TACCCCTCGCTTTGGAAGC---TTCTGCCTGCGAATTCGGCCAGC--AACC-TCTGTA-TGTCC-AAC-GAA Caloplaca_fuscorufa_EF643514 ATGAGAGGGGGGC-TTCGCGCTCCA--GGGG-TTCAC-GCC---CCGCACCTTTCCACCCTGTGT-ATATTTCCCACTGTTGCTTTGGCAGGCCCCCGGGGTTT-----CCCCCGGCGCCGGCTCCC-CTAA-ACCGGGGTTGGCGTGTGCCTGCCAGAGGCCC-ACCTCAAA--TCAATTGTTATATCAGTGTAGTCTGAG-TTGACGAGAAATCAA-ATAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGAAATTCCGAAGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTCTTGGGTGATCGCGGCCCCTAACACAGGGGCGCGACGCCCCAAATTCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAA--TACCCCTCGCTTTGGAAGC---TTCTGCCTGCGA-TTCGGCCAGC--AACC-TCTGTA-TGTCC-AAC-GAA Caloplaca_fuscorufa_EF643513 ATGAGAGGGGGGC-TTCGCGCTCCA--GGGG-TTCAC-GCC---CCGCACCTTTCCACCCTGTGT-ATATTTCCCACTGTTGCTTTGGCAGGCCCCCGGGGTTT-----CCCCCGGCGCCGGCTCCC-CTAA-ACCGGGGTTGGCGTGTGCCTGCCAGAGGCCC-ACCTCAAA--TCAATTGTTATATCAGTGTAGTCTGAG-TTGACGAGAAATCAA-ATAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGAAATTCCGAAGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTCTTGGGTGATCGCGGCCCCTAACACAGGGGCGCGACGCCCCAAATTCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAA--TACCCCTCGCTTTGGAAGC---TTCTGCCTGCGA-TTCGGCCAGC--AACC-TCTGTA-TGTCC-AAC-GAA Caloplaca_ammiospila_EF643516 ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-ACTCCC----CGCACCTTTCCACCCTTTGTTGTACCTTCCA-TGTTGCTTTGGCGGGCCCCGGGGGGTTAAT---CCCTGGCGCTGG-TCCC-CTAA-CTGGGGGTTGGCGAGTGCCCGTCGAAGGCCC-ATC-AAAAA-TC-TTTTTTTTATCAGTGAAGTCCGAG-TACAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCCC-------CCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCGAGCGCAGTAAATTACAATTCGCTTTGGAAGC-TTTTCTGCCTGTGG-CCTCGCCAGC--AACCCCCCCAA-TCTTT-AACCAAA Caloplaca_ammiospila_EF643515 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-ACTCCC----CGCACCTTTCCACCCTTTGTTGTACCTTCCA-TGTTGCTTTGGCGGGCCCCGGGGG-TTAAT---CCCTGGCGCTGG-TCCC-CTAA-TTGGGGGTTGGCGAGTGCCCGTCGAAGGCCC-ATC-AAAAA-TC---TTTTTTATCAGTGAAGTCCGAG-TACAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCCC-------CCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACAATTCGCTTTGGAAGCTTTTTCTGCCTGTGG-CCTCGCCAGC--AACCCCCCCAA-TCTTT-AACCAAA Caloplaca_furfuracea_FJ866813 ATGAGAGGGGGGC-TTCGCGCTCCA--GGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGTTGTATCTTCCA-TGTTGCTTTGGCGGGCCCCAGGGG-ATAATCACCTCTGGCGCTGG-TCCC-CTAA-TCGGGGTTTAGCGAGTGCCCGTCGAAGGCCC-ATT-AAAAA-TC----TTTTTATCAGTGAAGTCTGAG-TACAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAATCCCTCAAGCTTTGCTTGGTATTAGGTGTTCGCCC-------TCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACAATCCGCTTTGGAAGC--TTTCTGCCTGTGG-CCCCGCCAGC--AATC-CCCCCG-TCTTT-AACCAAA Caloplaca_furfuracea_FJ866811 ATGAGAGGGGGGC-TTCGCGCTCCA--GGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGTTGTACCTTCCA-TGTTGCTTTGGCGGGCCCCAGGGG-ATAATCACCTCTGGCGCTGG-TCCC-CTAA-TCGGGGTTTAGCGAGTGCCCGTCGAAGGCCC-ATT-AAAAA-TC----TTTTTATCAGTGAAGTCTGAG-TACAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAATCCCTCAAGCTTTGCTTGGTATTAGGTGTTCGCCC-------TCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACAATCCGCTTTGGAAGC--TTTCTGCCTGTGG-CCCCGCCAGC--AATC-CCCCCA-TCTTT-AACCAAA Caloplaca_scabrosa_Czech_Republic ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-ACTCCC----CGCACCTTTCCACCCTTTGTTGTACCTTCCA-CGTTGCTTTGGCGGGCCCCGGGGG-CCAATCACCCCTGGCGCTGG-TCCC-CTAA-TTGGGGTCTGGCGAGTGCCCGTCGAAGGCCC-ATT-AAAAC-CC---TTTTTAATCAGTGAAGTCCGAG-TACAAAACAAATCAATTTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAAC-CACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC--------CCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGCAAATTACAATCCGCTTTGGAAGC-TTTTCTGCCTGTGG-CCCCGCCAGC--AACC-CCCCAA-TATTT-AACCAAA Caloplaca_furfuracea_Austria ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-ACC---CCGCACCTTTCCACCCTTTGTTGTACCTTCCA-TGTTGCTTTGGCGGGCCCCGGGGG-CCAATCACCCCTGGCGCTGG-TCCC-CCTAATTGGGGTTTGGCGAGCGCCCGTCGAAGGCCC-ATC-AAAAA-CC----TTTTTATCAGTGAAGTCCGAG-TACAAAACAAAACAA-TT-AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACTCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCCC-------CCCGAGGGCG---CACCCCAAATCTAGTGGCAGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATCCGCTTTGGAAGC--TTTCTGCCTGTGA-CCCCGCCAGC--AACC-CCCCAA-TC----------- Caloplaca_sp._aff._scabrosa_Ukraine_1 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-ACC---CCGCACCTTTCCACCCTTTGTTGTACCTTCCA-TGTTGCTTTGGCGGGCCCCGGGGG-CCAATTACCCCTGGCGCTGG-TCCC-CTAA-TTGGGGTTTGGCGAGTGCCCGTCGAAGGCCC-ATT-CAAA--TC----TTTTTATCAGTGAAGTCCGAG-TACAAAACAAAACAA--TGAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-AAACCTAGGGGCATGCCTGTTCGAGCGTCATT-AACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC--------CCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCGGGGAGACTTCAAGCGCAGTAAATTACCATCCGCTTTGGAAAG-CTTTCTGCCCATGGTCCCCGCCAGC--AA----------------------- Caloplaca_sp._aff._scabrosa_Ukraine_2 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-ACC---CCGCACCTTTCCACCCTTTGTTGTACCTTCCA-TGTTGCTTTGGCGGGCCCCGGGGG-CCAATTACCCCTGGCGCTGG-TCCC-CTAA-TTGGGGTTTGGCGAGTGCCCGTCGAAGGCCC-ATT-AAAA--TC----TTTTTATCAGTGAAGTCCGAG-TACAAAACAAAACAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC--------CCCAAGGGCG---CACCCC----------------------------------------------------------------------------------------------------------------- Caloplaca_crenularia_AF353965 ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AC-CCC--CCCGAACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCTGGG-G-----TTACTCCCGGCGCTGG-TCCC-CTAA--CAGGGCCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTCTTATCAGTGAAGTCCGAG-TTTAAAACAAATCAG-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGG-TATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCC------TCCCCCGGGGCG---CACCCCAAATCCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTCCCTGTGG-CCCCGCCAGC--AAC---CCCA--TCTTTTTACCAAA Caloplaca_crenularia_EF643511 ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AC-CCC--CCCGAACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TTACTCCCGGCGCTGG-TCCC-CTAA--CAGGGCCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTCTTATCAGTGAAGTCCGAG-TTTAAAACAAATCAG-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGACATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCC------TCCCCCGGGGCG---CACCCCAAATCCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTCCCTGTGG-CCCCGCCAGC--AAC---CCCA--TCTTTTTACCAAA Caloplaca_crenularia_Iran ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AC-CCC--CCCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-CTAA--CGGGGCCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCCGAG-TCCAAAACAAATCAA-TCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGCGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGACATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCC------TCCCCCGGGGCG---CACCCCAAATCCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTACCTGTGG-CCCCGCCAGC--AAC---CCCA--TCTTTTTACCAAA Caloplaca_crenularia_Hungary ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AT-ACC-CCCCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-TTAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTCATCAGTGAAGTCCGAG-TCTAAAATAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGACATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCCCGCC------TCCCCCGGGGCG---CACCCCAAATTCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTCCCTGTGG-CCCCGCCAGC--AAC---CCCA--TCTTTTTGCCAAA Caloplaca_crenularia_Turkey ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AT-ACC-CCCCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-CTAA--CGGGGCCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCACTGAAGTCCGAG-TCCAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGACATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCC------TCCCCCGGGGCG---CACCCCAAATCCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTTGAAGC---TTCTACCTGTGG-CCCCGCCAGC--AAC---CCCA--TCTTTT------- Caloplaca_crenularia_EF643512 ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AC-CCC--CCCGAACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TTACTCCCGGCGCTGG-TCCC-CTAA--CGGGGCCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC-----TTTTATCAGTGAAGTCCGAG-TCCAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCC------TCCCCCGGGGCG---CACCCCAAATCCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TT?TCCCTGTGG-CCCCGCCAGC--AAC---CCCATTTTTTTTTACCAAA Caloplaca_crenularia_Bulgaria ---------------------------------------------------------------------------------------GCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCCACTAA--CGGGGCCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAACACC---TTTTTATCAGTGAAGTCCGAG-TCCAAAACAAATCAA-TCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGACATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCC------TCCCTCGGGGCG---CACCCCAAATCCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTACCTGTGG-TCCCGCCAGC--AAC---CCCA--TCTTTTTACCAAA Caloplaca_herbidella_Turkey ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-CCAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCTGAG-TCTAAAACAAATTAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC-------CCCTAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCG-TTTGGAAGT---TTCTGCCTGTGG-CCCCGCCAGC--AAC---CACA---T----------A Caloplaca_herbidella_FJ866799 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-CCAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCTGAG-TCTAAAACAAATTAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC-------CCCTAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGG---TTCTGCCTGTGG-CCCCGCCAGC--AAC---CACA---TATTTTACCAAA Caloplaca_herbidella_FJ866807 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-CCAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCTGAG-TCTAAAACAAATTAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC-------CCCTAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAG?---TTCTGCCTGTGG-CCCCGCCAGC--AAC---CACA---TATTTTACCAAA Caloplaca_herbidella_FJ866805 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-CCAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCTGAG-TCTAAAACAAATTAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCTTTGCTTGGTATTGGGTGCTCGCC-------CCCTAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGT---TTCTGCCTGTGG-CCCCGCCAGC--AAC---CACA---TATTTTACCAAA Caloplaca_coralliza_FJ866796 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-GCC---TCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGGAG-----TTACTCCCGGCGCTGG-TCCC-CTAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCCGAGTTCTAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCCCGCC--------CCCAAGGACG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTACCTGTGG-CCCCGCCAGC--AACC-CCCCA---TTTTTTACCAAA Caloplaca_coralliza_FJ866794 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG-TT-AC-GCC---CCGCACCTTTCCACCCTTTGT-ATATCTTCCACCGTTGCTTTGGCGGGCCTCGGGAG-----TTACTCCCGGCGCTGG-TCCC-CTGA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGATGTCCGAG-TCTAAAACAAATCAA-TCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGATATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCCCGCC--------CCCAAGGGCG---CACCCCAAATCTAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACCATTCGCTTTGGAAGC---TTCTACCTGTGG-CCCCGCCAGC--AACC-CCCCA----TTCTTACCAAA Caloplaca_crenularia_Crete_2 ATGAGAGGGGGGC-TTCGCGCTCCAGGGGGG-TT-AT-ACCCCCCCGCACCTTTCCACCCTTTGT-ATATCTTCCACTGTTGCTTTGGCGGGCCCCGGG-G-----TCACTCCCGGCGCTGG-TCCC-TTAA--CGGGGTCTCGCGAGTGCCCGTCGAAGGCCC--TT-CAAAAACC----TTTTTATCAGTGAAGTCCGAG-TCTAAAATAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGACATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCCCGCCCCCC---CCCCCGGGGCG---CACCCCAAATCCAGTGG------------------------------------------------------------------------------------------------------ Caloplaca_ferruginea_FJ866808 ATGAGAGGGGGGC-TTCGCGCTCCA-GGGGG--TCAC-ACC--CCCGCACCTTTCCACCCTTTGT-GTACCTTCCA-TGTTGCTTTGGCGGGCCCCGGG-GTCTTTTAGCCCCTGGCGCTGG-CCCC-CGAA--TAGGGGCTGGCGAGCGCCCGTCGAAGGCCC-A-T-CAAAATC-----TTCTTATCAGTGCTGTCTGAG-TACAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCTCGCCCC------CCCAAGGGCG---CACCCCAAATTCAGTGGCGGTCCAGGGAGACTTCAAGCGCAGTAAATTACAATTCGCTTTGGAAGC---TTCTGCCTGTGG-CCCCGCCAGC--AACCCCCCCA---TATTTTACCAAA Caloplaca_crenularia_Crete_1 ATGAGAGGGGGGC-TTC-CGCTCCAGGGGGG--TCAC-ACC---CCGAACCTTTCCACCCTTTGT-TCATCTTCCA-TGTTGCTTTGGCGGGCCCCAGGGG-C-ATTAGCTCCTGGCGCTGG-TCCC-CTAAACCGGAGCCTGGCGAGTGCCCGTCGACGGCCC-ATTT-AAAAAC-----TTTTTATCAGTGAAGTCCGAG-CATGAAACAAATTAT-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGKGCCCGCCCCC-----CTAAAGAGCG---CACCCTAAATTTAGTGG-GGTCCAGGGAGACTTCAAGCGCAGTAAATTACAATCCSCTTTGGAAGC--TTTCTACCTGTGG-CCCCGCCAAT--AACCCCCCAA---TTTTTGACCAAA Caloplaca_crenularia_Spain ATGAGAGGGGGGC-TTCGCGCTCCA--GGGG-TTTAC-ACC---CCGAACCTTTCCACCCTTTGT-GTATCTTCCA-TGTTGCTTTGGCGGGCCCCAGGGG-C-AGTAGCTCCTGGCGCTGG-TCCC-CTAAACGGGGGTCTGACGAGTGCCCGTCGAAGGCCC-ATTT-AAAACC-----TTTTAATCCGTGAAGTCCGAG-CACAAAACAAATCAA-TTAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAAAACGCAGCGAAATGCGAT-AAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTGGGA-ATTCCTAGGGGCATGCCTGTTCGAGCGTCATTAAACCCCTCAAGCATTGCTTGGTATTGGGTGCCCGCCCCCCC-CCCCCAAGGGCG---CACCCCAAATTCAGTGGCGGTCCAGGG-GACTTCAAGCGCAGTAAATTACAATCCGCTTTGGAAGC-TTTTCTACCTGTGG-CCCCGCCAG---------------------------- ; END; BEGIN TREES; Title 'Trees from "Caloplaca_crenularia.nex"'; LINK Taxa = Taxa; TRANSLATE 1 Caloplaca_stillicidiorum_EU365860, 2 Caloplaca_cerina_EU365861, 3 Caloplaca_aff._crenularia_Canary_Islands, 4 Caloplaca_fuscorufa_Ukraine, 5 Caloplaca_fuscorufa_EF643514, 6 Caloplaca_fuscorufa_EF643513, 7 Caloplaca_ammiospila_EF643516, 8 Caloplaca_ammiospila_EF643515, 9 Caloplaca_furfuracea_FJ866813, 10 Caloplaca_furfuracea_FJ866811, 11 Caloplaca_scabrosa_Czech_Republic, 12 Caloplaca_furfuracea_Austria, 13 Caloplaca_sp._aff._scabrosa_Ukraine_1, 14 Caloplaca_sp._aff._scabrosa_Ukraine_2, 15 Caloplaca_crenularia_AF353965, 16 Caloplaca_crenularia_EF643511, 17 Caloplaca_crenularia_Iran, 18 Caloplaca_crenularia_Hungary, 19 Caloplaca_crenularia_Turkey, 20 Caloplaca_crenularia_EF643512, 21 Caloplaca_crenularia_Bulgaria, 22 Caloplaca_herbidella_Turkey, 23 Caloplaca_herbidella_FJ866799, 24 Caloplaca_herbidella_FJ866807, 25 Caloplaca_herbidella_FJ866805, 26 Caloplaca_coralliza_FJ866796, 27 Caloplaca_coralliza_FJ866794, 28 Caloplaca_crenularia_Crete_2, 29 Caloplaca_ferruginea_FJ866808, 30 Caloplaca_crenularia_Crete_1, 31 Caloplaca_crenularia_Spain; TREE Bayesian_inference_Crenularia = (1:0.148489,2:0.232893,(3:0.554338,((4:0.010599,5:0.010442,6:0.010637)1.00:0.589929,((7:0.036877,8:0.011908)0.89:0.065125,(9:0.032332,10:0.011899)1.00:0.150717,11:0.096806,(12:0.126632,(13:0.130171,14:0.016052)0.72:0.046334)0.99:0.04714,((((((((15:0.025554,16:0.019245)1.00:0.071874,20:0.023795)1.00:0.052284,(17:0.026012,21:0.066613)0.73:0.024026)0.57:0.029347,19:0.039971)0.50:0.042225,(18:0.042203,28:0.015284)1.00:0.071446)1.00:0.080206,((22:0.012155,23:0.020723,24:0.011531,25:0.011528)1.00:0.131968,(26:0.03738,27:0.086133)0.64:0.0274)0.73:0.042841)0.97:0.136633,(30:0.232978,31:0.134394)0.99:0.09607)0.74:0.074548,29:0.216739)0.92:0.113275)1.00:0.456105)1.00:0.243831)1.00:0.514834); END;