#NEXUS [written Tue Nov 15 12:52:19 CET 2011 by Mesquite version 2.75 (build 564) at Pedro1/192.168.1.40] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=26; TAXLABELS Carex_melanostachya Carex_section_Ceratocystis_R1_1 Carex_section_Ceratocystis_R1_2 Carex_viridula_R3 Carex_barrosii_R4 Carex_cryptolepis_R4 Carex_cryptolepis_R7 Carex_flaviformis_R9 Carex_monotropa_R10 Carex_flava_R12 Carex_flava_R13 Carex_lepidocarpa_R23 Carex_demissa_x_Carex_lepidocarpa_R23 Carex_lepidocarpa_subsp_jemtlandica_R27 Carex_castroviejoi_R28_1 Carex_castroviejoi_R28_2 Carex_hostiana_R29_1 Carex_hostiana_R29_2 Carex_lutea_R31_1 Carex_lutea_R31_2 Carex_sp_R32_1 Carex_sp_R32_2 Carex_cretica Carex_distans Carex_durieui_1 Carex_durieui_2 ; END; BEGIN CHARACTERS; TITLE Carex_section_Ceratocystis_reduced_ITS_matrix; DIMENSIONS NCHAR=614; FORMAT DATATYPE = DNA INTERLEAVE GAP = - MISSING = ?; MATRIX Carex_melanostachya CCGTTGCCTTTCCGGAAACACGACCGTCGAACACGTGACAGAATGCTGCCGCGGAGGCGCTCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCCCTTCCGGGCGCGTCGGTCGCTGGCCGGAACACGGCGCGGGATGACGCCAAGGAACACGGTAAA-GCTGAGGCGCCGGCGGGCCGCTCGCGGTCTCCGTCGGCTGCCGAGGCCA?CAGAAAAA-AATA?GACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGCTGCCTGACTAACGGCA-GAGATGCGGACATTGGCCCTCCGAGCCGCGAGGCGCGGTGGGCCCAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTGCTGCGCACGTCGCCCCGAGCCCCGT?CCGACGCAGGGCCTTGTACGACCCCCTAACGAGGAGCAAGCCGCTGCGGCTCCGGCCGCGCGGCGCCTTCGGt Carex_section_Ceratocystis_R1_1 CCGTTGCCTTTCCAAAAACACGACCGTCGAACACGTGACAGAACGCTGCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACgATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_section_Ceratocystis_R1_2 CCGTTGCCTTTCCAAAAACACGACCGTCGAACACGTGACAGAACGCTGCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AaTACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_viridula_R3 CCGTTGCCTTTCCAAAAACACGACCGTCGAACgCGTGACAGAAtGCTaCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCC?TCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCG?ACC?CGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGcGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_barrosii_R4 CCGTTGCCTTTCCaAAAACACGACCGTCGAACACGTGACAGAATGCTACCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_cryptolepis_R4 ??????????????aaaacacgaccgtcgaacacgtgacagaatgctaccgcggaggcgcccgccgcctcctcggccccaccggcctcctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggaacacgataaa-gcggaggcaccggcgagccgctcaagggctctgtcggtcgccaaggccaacaaaaaa--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggttgcctaaccaacggca-gagatgcggacattggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctactgcgcgcgtcgccccgagccccgtaccgacgcatggccctgtacgaccccataacgaggagcatgccgccgctgcttcggctgcgcggcgccttcg?t Carex_cryptolepis_R7 ccgttgcctttccaaaaacacgaccgtcgaacacgtgacagaatgctactgcggaggcgcccgccgcctcctcggtcccaccggcctcctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggaacacgataaa-gcggaggcaccggcgagccgctcaagggctctgtcggtcgccaaggccaacaaaaaa--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggttgcctaaccaacggca-gagatgcggacattggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctactgcgcgcgtcgccccgagccccgtaccgacgcatggccctgtacgaccccataacgaggagcatgccgccgctgcttcggctgcgcggcgccttcggt Carex_flaviformis_R9 ctgttgcctttccaaaaacacgaccgtcgaacacgtgacagaatgctactgcggaggcgcccgccgcctcctcggtcccaccggcctcctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggaacacgataaa-gcggaggcaccggcgagccgctcaagggctctgtcggtcgccaaggccaacaaaaaa--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggttgcctaaccaacggca-gagatgcggacattggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctactgcgcgcgtcgccccgagccccgtaccgacgcatggccctgtacgaccccataacgaggagcatgccgccgctgcttcggctgcgcggcgccttcggt Carex_monotropa_R10 ccgttgcctttccaaaaacacgaccgtcgaacacgtgacagaatgctaccgcggaggcgcccggcgcctcctcggccccaccGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGAAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCACGGGCGTTAGAAGCCCATCCACGCTCGGTCGCCTAACCAACGGCA-GAGATGCGGATATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACTGACGCAGGGCCCTGTACGACCCCATAACGAGGAGCATGCTGCCGCTGCTTCGGCTGCGTGGCGCCTTCGGt Carex_flava_R12 CCGTTGCCTTTCCAAAAACACGACCGTTGAACACGTGACAGAATGCTGCCGCGGAGGCGCCCGCCGCCTCCACGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGTGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAAA-AATAGGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAgAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCAGGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCTGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_flava_R13 ccgttgcctttccaaaaacacgaccgttgaacacgtgacagaatgctgccgcggaggcgcccgccgcctccacggccccaccggcctcctccctctcgcc-tttcgggtgcgttggttgctggtcggaatacggcgcgggatgacgccaaggaacacgataaa-gcggaggcaccggcgagccgctcaagggctctgtcggtcgccaaggccaacaaaaaaaaaatatgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggttgcctaaccaacggca-gagatgcggacattggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctactgcgcgcgtcgccccgagccccgtaccgacgcagggccctgtacgaccccataacgag?agcatgccgctg??????????????????????????t Carex_lepidocarpa_R23 CCGTTGCCTTTCCAAAAACACGACCGTCGAACACGTGACAGAACGCTGCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAgGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_demissa_x_Carex_lepidocarpa_R23 CCGTTGCCTTTCCAAAAACACGACCGTCGAACACGTGACAGAACGCTGCcGCGGAGGCGCCCGCCGCCTCCTCGGCCCCaCCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAgGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_lepidocarpa_subsp_jemtlandica_R27 CCGTTGCCTTTCCAAAAACACGACCGCCGAACACGTGACAGAACGCTGCCGCGGAGGCGCCCGTCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCC?AGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCATAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_castroviejoi_R28_1 CCGTTGCCTTTCCAGAAACACGACCGTCGAACACGTGACAGATCGCTGCCGcGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGCCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCCGTCGGTCGCCGAGGCCAACAAAAAA--AGTACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCCTAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGC??????t Carex_castroviejoi_R28_2 CCGTTGCCTTTCCaGAAACACGACCGTCGAACACGTGACAGATCGCTGCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCAcCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGcCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCcGTCGGTCGCCgAGGCCAACAAAAAA--agTACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCATGGCCCTGTACGACCCCCTAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_hostiana_R29_1 CCGTTGCCTTTCCaGAAACACGACCGTCGAACACGTGACAGAACGCTGCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCG?TGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCT?TGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGC?CGTCGCCCCGAGCCCCGTACCGACGCAGGGCCCTGTACGACCCCCTAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_hostiana_R29_2 CCGTTGCCTTTCCAGAAACACGACCGTCGAACACGTGACAGAACGCTGCCGCGGAGGCGCCCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-TTTCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGATAAA-GCGGAGGCACCGGCGAGCCGCTCAAGGGCTCTGTCGGTCGCCAAGGCCAACAAAAAA--AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAACCAACGGCA-GAGATGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCGCGTCGCCCCGAGCCCCGTACCGACGCAGGGCCCTGTACGACCCCCTAACGAGGAGCATGCCGCCGCTGCTTCGGCTGCGCGGCGCCTTCGGt Carex_lutea_R31_1 ccgttgcctttccataaacacgaccgtcgaacacgtgacagaacgctgccgcggaggcgcccgccgcctcctcggccccaccggccacctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggtacacgataaa-gcggaggcaccggcgagccgctcaagggctctgtcggtcgccgaggccaacaaaaaa--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggtcgcctaaccaacggta-gagatgcggacgttggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctgctgcgcgcgtcgccccgagccccgtaccgacgcagggccctgtacgaccccataacgaggagcatgccgccgttgcttcggctgcgcggcgccttcggt Carex_lutea_R31_2 ccgttgcctttccataaacacgaccgtcgaacacgtgacagaacgctgccgcggaggcgcccgccgcctcctcggccccaccggccacctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggtacacgataaa-gcggaggcaccggcgagccgctcaagggctctgtcggtcgccgaggccaacaaaaaa--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggtcgcctaaccaacggta-gagatgcggacgttggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctgctgcgcgcgtcgccccgagccccgtaccgacgcagggccctgtacgaccccataacgaggagcatgccgccgttgcttcggctgcgcggcgccttcggt Carex_sp_R32_1 ccgttgcctttccataaacacgaccgtcgaacacgtgacagaacgctgccgcggaggcgcccgccgcctcctcggccccaccggcctcctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggaacacgaaaaa-gcggaggcaccggcgagccgctcaagggctctgccggtcgccgaggccaacaaaaga--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggttgcctaaccaatggca-gagatgcggacgttggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctactgcgcgcgtcgccccgagccccgtaccgacgcagggccctgtacgaccccctaacgaggagcatgccgccgctgcttcggcagcgcggcgccttcggt Carex_sp_R32_2 ????????????????????????cgtcgaacacgtgacagaacgctgccgcggaggcgcccgccgcctcctcggccccaccggcctcctccctctcgcc-tttcgggcgcgttggttgctggtcggaatacggcgcgggatgacgccaaggaacacgaaaaa-gcggaggcaccggcgagccgctcaagggctctgccggtcgccgaggccaacaaaaga--aatacgactctcggcaacggatatctcggctctcgcatcgatgaagaacgtagcgaaatgcgatacgtggtgtgaattgcagaatcccgtgaaccatcgagtctttgaacgcaagttgcgcccgagggaccctcccgagggcacgcctgcctcatgggcgttagaagcccatccacgctcggttgcctaaccaatggca-gagatgcggacgttggccctccgaaccgcgaggcgcggtgggcctaagtgtgcggccgtcgtacgtggccgggagcggcgagtggtgggctactgcgcgcgtcgccccgagccccgtaccgacgcagggccctgtacgaccccctaacgaggagcatgccgccgctgcttcggcagcgcggcgccttcggt Carex_cretica ??????CCTCTCCAGAAACACGACCGTCGAACACGTGACAGAACGCTGCCGCGGAGGCGCTCGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-CTCCGGGCGCGTCGGCGGACGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGGTAGA-GCCGAGGCACCGGCGTCCCGCTCAGGGGCTGTGCCGGTTGCCAAGGCCAACAAAAAAA-AATACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCACGGGCGTTAGAAGCCCATCCACGCTCGGCTGCCTAACCAACGGCA-GAGACGCGGACATTGGCCCTCCGAACCGCGAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCACGTCGCCCCGAGCCCCGTACCGACGCAGGGCCCTGTACGACCCCCTAACGAGGAGCACGCCTCCGCGGCTTCGGCCGCGCGGCGCCTTCGGt Carex_distans TCGTTGCCTCTCC?GAAACACGACCGTCGAACACGTGACAGAATGCTGCTGCGGAGGCGCTTGCCGCCTCCTCGGCCCCACCGGCCTCCTCCCTCTCGCC-CTTCGGGCGCGTCGGTTGCTGGTCGGAATACGGCGCGGGTTGACGCCAAGGAACACGATAAAAGCCGAGGCACCGGCGAGCCGCTCGAGGGCTCTGTCGACTGCCAAGGCCAACAAAACT--AATATGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGCTGCCTAACCAAGGGCA-GCGATGCGGTAATTGGCCCTCCGAACCGCGAGGTGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCACGTCACCCCGAGCCGCGTGCCGACGCAGGGCCCTGTACGACCCCCTAACGAGGAGCTGGCCGGCGCGGCTTCGGCTGCGCGGCGCCTTCGGt Carex_durieui_1 TCGTTGCCTTTCCAGAAACACGACCGTTGAACACGTGACAGAATGCTGCCGCGGAGGTGCTTGCCGCCTCCTCGGCCCCACCGGCCTCATCCCTCTCGCC-?TCCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACAC?AGAAA-?CTGAGGGA?CGACGAGCTGCACAAGCGCTCTGTCGGTTGCCAAGGCCAATAAAAA---AATATGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCAAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAAATAACGGCAAGAGATGCGGACATTGGCCCTCCGAACCGTAAGGCGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCACGCCACCCCGAGCCCCGTACCGA?GCAGGGCCTTGTTTGAACCCTTAACGAGGAGCATGCTGTTGCGGCTTCTGCTGTGCGGTGCCTTCGGa Carex_durieui_2 TCGTTGCCTTTCCAGAAACACGACCGTTGAACACGTGACAGAATGCTGCCGCGGAGGTGCTTGCCGCCTCCTCGGCCCCACCGGCCTCATCCCTCTCGCc-?TCCGGGCGCGTTGGTTGCTGGTCGGAATACGGCGCGGGATGACGCCAAGGAACACGAGAAA-GCTGAGGGa?CGACGAGCTGCACAAGCGCTCTGt?GGTTGCCAAGGCCAATAAAAA---AATATGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACGTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCAAGGGACCCTCCCGAGGGCACGCCTGCCTCATGGGCGTTAGAAGCCCATCCACGCTCGGTTGCCTAAATAACGGCAAGAGATGCGGACATTGGCCCTCCGAACCGTAAGGTGCGGTGGGCCTAAGTGTGCGGCCGTCGTACGTGGCCGGGAGCGGCGAGTGGTGGGCTACTGCGCACGCCACCCCGAGCCCCGTACTGACGCAGGGCCTTGTTTGAACCCTTAACGAGGAGCATGCTGTTGCGGCTTCTGCTGTGCGGTGCCTTCGGa ; END; begin mrbayes; charset ITS1 = 1 -223; charset 5.8S = 224 -389; charset ITS2 = 390 -613; charset indel = 614; partition region = 4 : ITS1 , 5.8S , ITS2 , indel; set partition = region; lset applyto = ( 1 ) nst = 6 rates = propinv; lset applyto = ( 2 ) nst = 2 rates = propinv; lset applyto = ( 3 ) nst = 6 rates = gamma; lset applyto = ( 4 ) nst = 1 rates = equal; set autoclose = yes; mcmc ngen = 5000000 printfreq = 100 samplefreq = 100 nchains = 4 savebrlens = yes; sump; sumt; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1 - 614; END; BEGIN TREES; Title 'Trees from "Cernoaps.tree.con"'; LINK Taxa = Taxa; TRANSLATE 1 Carex_melanostachya, 2 Carex_section_Ceratocystis_R1_1, 3 Carex_section_Ceratocystis_R1_2, 4 Carex_viridula_R3, 5 Carex_barrosii_R4, 6 Carex_cryptolepis_R4, 7 Carex_cryptolepis_R7, 8 Carex_flaviformis_R9, 9 Carex_monotropa_R10, 10 Carex_flava_R12, 11 Carex_flava_R13, 12 Carex_lepidocarpa_R23, 13 Carex_demissa_x_Carex_lepidocarpa_R23, 14 Carex_lepidocarpa_subsp_jemtlandica_R27, 15 Carex_castroviejoi_R28_1, 16 Carex_castroviejoi_R28_2, 17 Carex_hostiana_R29_1, 18 Carex_hostiana_R29_2, 19 Carex_lutea_R31_1, 20 Carex_lutea_R31_2, 21 Carex_sp_R32_1, 22 Carex_sp_R32_2, 23 Carex_cretica, 24 Carex_distans, 25 Carex_durieui_1, 26 Carex_durieui_2; TREE MJ_consensus_tree_of_the_49850_trees_from_Bayesian_analysis_of_ITS_Carex_section_Ceratocytistis = (1:0.054707,23:0.0428,24:0.049393,(25:0.002417,26:0.004506)1.00:0.067056,(17:0.001849,18:0.001831,(15:0.001871,16:0.001876)1.00:0.011508,((21:0.001917,22:0.001978)1.00:0.011801,(19:0.001886,20:0.001854)1.00:0.015203)0.94:0.00695,(2:0.00177,3:0.001757,14:0.005294,(12:0.001803,13:0.001803)0.97:0.003515,((10:0.003441,11:0.002368)1.00:0.012715,(4:0.003513,5:0.001766,6:0.001822,9:0.018432,(7:0.001801,8:0.003496)1.00:0.005292)0.71:0.004478)0.51:0.004267)0.88:0.005668)1.00:0.017308); TREE MJ_consensus_tree_of_the_49850_trees_from_Bayesian_analysis_of_ITS_Carex_section_Ceratocytistis = (1:0.054707,23:0.0428,24:0.049393,(25:0.002417,26:0.004506):0.067056,(17:0.001849,18:0.001831,(15:0.001871,16:0.001876):0.011508,((21:0.001917,22:0.001978):0.011801,(19:0.001886,20:0.001854):0.015203):0.00695,(2:0.00177,3:0.001757,14:0.005294,(12:0.001803,13:0.001803):0.003515,((10:0.003441,11:0.002368):0.012715,(4:0.003513,5:0.001766,6:0.001822,9:0.018432,(7:0.001801,8:0.003496):0.005292):0.004478):0.004267):0.005668):0.017308); END; BEGIN CODONS; CODESET * UNTITLED = universal: 1 - 614; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Jukes-Cantor': 1 - 614; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1321357940132; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 637463361729929347; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 7156063566980359934; mqVersion 275; checksumv 0 3 2709374803 null getNumChars 614 numChars 614 getNumTaxa 26 numTaxa 26 short true bits 1152921504606846991 states 15 sumSquaresStatesOnly 266994.0 sumSquares -4.6439678205563796E21 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 327; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 338; setLocation 51 67; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; showTaxa #637463361729929347 #mesquite.lists.TaxonList.TaxonList; tell It; setTaxa #637463361729929347; getWindow; tell It; newAssistant #mesquite.lists.DefaultTaxaOrder.DefaultTaxaOrder; newAssistant #mesquite.lists.TaxonListCurrPartition.TaxonListCurrPartition; getTable; tell It; rowNamesWidth 330; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 953 271; setLocation 51 67; 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.trees.ManageTrees.ManageTrees; tell It; showTrees 0 #mesquite.lists.TreesList.TreesList; tell It; setTreeBlock 1; getWindow; tell It; newAssistant #mesquite.lists.NumForTreeList.NumForTreeList; tell It; suppress; setValueTask #mesquite.trees.NumberOfTaxa.NumberOfTaxa; desuppress; endTell; newAssistant #mesquite.lists.TreeListRooted.TreeListRooted; newAssistant #mesquite.lists.TreeListPolys.TreeListPolys; newAssistant #mesquite.lists.TreeListPolyAssumption.TreeListPolyAssumption; getTable; tell It; rowNamesWidth 598; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 953 271; setLocation 51 67; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TreesList.TreesListWindow.ibeam; endTell; setActive; endTell; showWindow; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #637463361729929347 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 1079.1321357850371.5206246304138859565; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 953 271; setLocation 51 67; setFont SanSerif; setFontSize 10; getToolPalette; tell It; 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; 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; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #7156063566980359934 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 953 271; setLocation 51 67; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; 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; 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; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; showCharacters #7156063566980359934 #mesquite.lists.CharacterList.CharacterList; tell It; setData 0; getWindow; tell It; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.stochchar.CharListProbModels.CharListProbModels; newAssistant #mesquite.lists.CharListCodonPos.CharListCodonPos; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 953 271; setLocation 51 67; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; endTell; end;