#NEXUS BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=48; TAXLABELS Praticolella_berlandieriana_B1 Praticolella_berlandieriana_N1 Praticolella_berlandieriana_N2 Praticolella_candida_candida_S1 Praticolella_candida_candida_S2 Praticolella_candida_candida_S3 Praticolella_candida_candidaS4 Daedalochila_hippocrepis Praticolella_pachyloma_K1_ESU1 Praticolella_pachyloma_K2_ESU1 Praticolella_pachyloma_K3_ESU1 Praticolella_pachyloma_K4_ESU1 Praticolella_berlandieriana_V1_ESU2 Praticolella_berlandieriana_V2_ESU2 Praticolella_berlandieriana_V3_ESU2 Praticolella_berlandieriana_M1_ESU3 Praticolella_sp._ESU4JX Praticolella_sp._T_ESU5 Praticolella_griseola_H2_ESU6 Praticolella_flavescens_O1 Praticolella_flavescens_O2 Praticolella_flavescens_T Praticolella_flavescens_P1 Praticolella_flavescens_P2 Praticolella_griseola_berlandieriana_J1 Lobosculum_pustula Millerelix_mooreana Praticolella_pachyloma_SP.C1 Praticolella_pachyloma_SP.C2 Praticolella_pachyloma_pachyloma_R1 Praticolella_pachyloma_pachyloma_R2 Praticolella_pachyloma_pachyloma_R3 Praticolella_pachyloma_pachyloma_R4 Praticolella_pachyloma_taeniata_S1 Praticolella_pachyloma_taeniata_S2 Praticolella_pachyloma_taeniata_S3 Praticolella_pachyloma_candida_T_banded Praticolella_pachyloma_candida_T_unbanded Praticolella_pachyloma_taeniata_W1 Polygyra_cereolus Polygyra_septemvolva Praticolella_jejuna Praticolella_griseola_C1 Praticolella_griseola_C2 Praticollela_trimatris_R1 Praticollela_trimatris_R2 Praticollela_trimatris_R3 Triodopsis_vannostrandi ; END; BEGIN CHARACTERS; TITLE all_H3_names_KEP; DIMENSIONS NCHAR=358; FORMAT DATATYPE = DNA GAP = - MISSING = ?; MATRIX Praticolella_berlandieriana_B1 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAAACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACTGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_berlandieriana_N1 ????????????????GCTTTGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_berlandieriana_N2 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACARACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACKGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_candida_candida_S1 ?GCATAATAGTGACACGCTTGGCGTGGATGGCGCACAAGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_candida_candida_S2 ?GCATAATAGTGACACGCTTGGCGTGGATGGCGCACARGTTGGTGTCYTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACKGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGGCGCTGGAAGGGCAGCTTGCGRATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_candida_candida_S3 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_candida_candidaS4 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACARGTTGGTGTCTTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACSGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Daedalochila_hippocrepis ?GCATRAT?GTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAAGAGCCCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCCGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCAATCTCTCGCACCAGGCGCTGGAAGGGCAGCTTRCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTA?CGATGGGGCTTCTTGACACCGCCGGTGGCCGGGGCCGACTTCCTGGCGGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCCGTCTGCTTGG??? Praticolella_pachyloma_K1_ESU1 GGCATAATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAAACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACTGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCVGTCTGCTTGGTAC Praticolella_pachyloma_K2_ESU1 GGCATAATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAAACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACTGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_pachyloma_K3_ESU1 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAAACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACMGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCWGGGGCYGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTG???? Praticolella_pachyloma_K4_ESU1 GGCATRATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTTGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCG??????????????????????????????????????????????????????????????????????????????????????????? Praticolella_berlandieriana_V1_ESU2 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACARGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCRGTGGCWGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_berlandieriana_V2_ESU2 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGACGCTGGAAGGGCAGCTTGCGAATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATTTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_berlandieriana_V3_ESU2 GGCATAATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACARACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACKGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_berlandieriana_M1_ESU3 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCCGTCTGCTTGGTAC Praticolella_sp._ESU4JX GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCTTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCWGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_sp._T_ESU5 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGG??????????????? Praticolella_griseola_H2_ESU6 GGCATRA?RG?GACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTT?????????????????????????????????????????????????????????????? Praticolella_flavescens_O1 ?GCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGACGCTGGAAGGGCAGCTTGCGAATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTG???? Praticolella_flavescens_O2 ??CATAATRGTGACACGCTTGGCGTGGATGGCGCACARGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGRCGCTGGAAGGGCAGCTTGCGRATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_flavescens_T GGCATAATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCTTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCCGTCTGCTT????? Praticolella_flavescens_P1 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACARGTTGGTGTCYT?GAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGC?GACTTCCTGGCTGCC???????????????????????????????????????????????????????????????? Praticolella_flavescens_P2 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGC?GACTTCCTGGCTGCCTTGGTGGCCAGCTGCTG??????????????????????????????????????????????? Praticolella_griseola_berlandieriana_J1 ??????????????????????????????????????????????????GAACAAACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTTTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCT?TT?TGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGCTTTCTTGAC?????????????????????????????????????????????????????????????????????????????????????????????????? Lobosculum_pustula GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAAGAGTCCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCKGAGCTCTGGAAACGCAGGTCGGTCTTGTAGTCYTGGGCGATTTCTCGCACCAGGCGCTGGAAKGGCAGCTTGCGGATCAGCAGCTCGGTRCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACAGTGCCGGGCCTGTACCGATGGGGTTTCTTGACACCTCCGGTGGCCGGGGCCGACTTCCTGGCCGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGG??? Millerelix_mooreana GGCATAATAGTGACGCGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAAGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAACAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCCGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTGCGGGCCGTCTGCTTGG??? Praticolella_pachyloma_SP.C1 GGCATRA?RGTGACACGCTTGGCGTGGATGGCGCACAAGTTGGTGTCTTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCT?ACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTG?AGCGATGGGGTTTCTTG?C?C?TCCGGTGGCAGGG?????????????????????????????????????????????????????????????????????????????????? Praticolella_pachyloma_SP.C2 GGCATAATAGTGACACGCTTGGCGTGGATGGCGCACAAGTTGGTGTCTTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGG??? Praticolella_pachyloma_pachyloma_R1 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTSACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_pachyloma_pachyloma_R2 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCYACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTARATTT???????????????????? Praticolella_pachyloma_pachyloma_R3 GGCATAATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACKAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCYGACTTCCTGGCTGCCTTGGTGGCCAACTGCTTGCGGGGAGCYTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTA? Praticolella_pachyloma_pachyloma_R4 ?????????GTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCSGTCTGCTTGGTAC Praticolella_pachyloma_taeniata_S1 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAACTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCCGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_pachyloma_taeniata_S2 ??????????????????????????????????????????????????????????????????????CCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCA?A?GCTGGAAGGGCAGCTTGCGAATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCYGTCTGCTTGGTAC Praticolella_pachyloma_taeniata_S3 ?????????????????????????????????????????????????????????????????GTAGGCTTCGCTGGCCTCTTGCA?GGCCATGACGG?GGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCA?CA?CTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGTGGTTTCTTGACACCCCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGG?CYGTCTGCTTGG??? Praticolella_pachyloma_candida_T_banded GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACMAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATTTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCWGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGACCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_pachyloma_candida_T_unbanded GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACAAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATTTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCTGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticolella_pachyloma_taeniata_W1 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACKAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATTTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCTGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGCCGTCTGCTTGGTAC Polygyra_cereolus ????????????????????????????????????????????????????????????????????????????????????????????????????????????????????CAGGTCCGTCTTGAAGTCCTGGGCGATCTCTCGGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGTCGGTAGCGATGCGGCTTCTTGACCCCGCCGGTGGCCGGGGCCGACTTCCGGGCCGCCTTGGTGGCCAGCTGCTTGCGGGGGGCCTTGCCTCCGGTCGATTTGCGGGC?GTCTGCTTGG??? Polygyra_septemvolva GGCATWATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCTTCCTGCAGGGCCATCACGGCCGAGCTCTGGAAGCGCAGGTCCGTCTTGAAGTCCTGGGCGATCTCTCGGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGTCGGTAGCGATGCGGCTTCTTG???????????????????????????????????????????????????????????????????????????????????????????????????? Praticolella_jejuna GGCATRATRGMGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGGCCCACCAGGTAGGCCTCGCAGGCCTCTTGCAGGGCCATGACGGCCGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCTGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGTCGGTAGCGATGGGGCTTCTTCACACCTCCGGTGGCCGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTCGATTTGCGGGCGGTCTGCTTGG??? Praticolella_griseola_C1 GGCATRATRGTGACRCGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACKAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTT???GACAC?T?CGGTGG??????????????????????????????????????????????????????????????????????????????????????? Praticolella_griseola_C2 GGCAT?ATRGTGACRCGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTS?CCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGG?TCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTG?CACCTCCGG?GGC?????????????????????????????????????????????????????????????????????????????????????? Praticollela_trimatris_R1 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCCACCAGGTARGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticollela_trimatris_R2 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAAACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTGACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACTGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCTGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Praticollela_trimatris_R3 GGCATRATRGTGACACGCTTGGCGTGGATGGCGCACAGGTTGGTGTCCTCGAACAGACCYACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCGGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATCTCTCTCACCAGGCGCTGGAAGGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGCCGGATCTCTCGCAGGGCCACGGTGCCGGGCCTGTAGCGATGGGGTTTCTTGACACCTCCGGTGGCAGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCGGTAGATTTACGGGC?GTCTGCTTGGTAC Triodopsis_vannostrandi GGCATRATRGTGACTCGCTTGGCGTGGATGGCGCACAAATTGGAGTCCTCGAAGAGACCCACCAGGTAGGCCTCGCTGGCCTCTTGCAGGGCCATGACGGCCGAGCTCTGGAAGCGCAGGTCGGTCTTGAAGTCCTGGGCGATTTCTCTCACCAGGCGCTGGAAAGGCAGCTTGCGGATCAGCAGCTCGGTGCTCTTCTGGTAACGACGGATTTCTCGCAGGGCCACGGTGCCGGGCCTGTARCGATGGGGCTTCTTGACACCSCCGGTGGCTGGGGCCGACTTCCTGGCTGCCTTGGTGGCCAGCTGCTTGCGGGGAGCCTTGCCTCCTGTGGATTTACGGGC?GTCTGCTTGG??? ; END; BEGIN TREES; Title all_H3_names_KEP; LINK Taxa = Taxa; TRANSLATE 1 Praticolella_berlandieriana_B1, 2 Praticolella_berlandieriana_N1, 3 Praticolella_berlandieriana_N2, 4 Praticolella_candida_candida_S1, 5 Praticolella_candida_candida_S2, 6 Praticolella_candida_candida_S3, 7 Praticolella_candida_candidaS4, 8 Daedalochila_hippocrepis, 9 Praticolella_pachyloma_K1_ESU1, 10 Praticolella_pachyloma_K2_ESU1, 11 Praticolella_pachyloma_K3_ESU1, 12 Praticolella_pachyloma_K4_ESU1, 13 Praticolella_berlandieriana_V1_ESU2, 14 Praticolella_berlandieriana_V2_ESU2, 15 Praticolella_berlandieriana_V3_ESU2, 16 Praticolella_berlandieriana_M1_ESU3, 17 Praticolella_sp._ESU4JX, 18 Praticolella_sp._T_ESU5, 19 Praticolella_griseola_H2_ESU6, 20 Praticolella_flavescens_O1, 21 Praticolella_flavescens_O2, 22 Praticolella_flavescens_T, 23 Praticolella_flavescens_P1, 24 Praticolella_flavescens_P2, 25 Praticolella_griseola_berlandieriana_J1, 26 Lobosculum_pustula, 27 Millerelix_mooreana, 28 Praticolella_pachyloma_SP.C1, 29 Praticolella_pachyloma_SP.C2, 30 Praticolella_pachyloma_pachyloma_R1, 31 Praticolella_pachyloma_pachyloma_R2, 32 Praticolella_pachyloma_pachyloma_R3, 33 Praticolella_pachyloma_pachyloma_R4, 34 Praticolella_pachyloma_taeniata_S1, 35 Praticolella_pachyloma_taeniata_S2, 36 Praticolella_pachyloma_taeniata_S3, 37 Praticolella_pachyloma_candida_T_banded, 38 Praticolella_pachyloma_candida_T_unbanded, 39 Praticolella_pachyloma_taeniata_W1, 40 Polygyra_cereolus, 41 Polygyra_septemvolva, 42 Praticolella_jejuna, 43 Praticolella_griseola_C1, 44 Praticolella_griseola_C2, 45 Praticollela_trimatris_R1, 46 Praticollela_trimatris_R2, 47 Praticollela_trimatris_R3, 48 Triodopsis_vannostrandi; TREE PAUP_1 = (48:0.0346665,(8:0.040676,16:0.003539,17:0.003604,18:0.0,19:0.0,25:0.017929,26:0.04549,27:0.022287,42:0.057412,(40:0.0,41:0.0):0.076337,(43:0.004693,44:0.0):0.0,(1:0.007403,2:0.003795,3:0.0):0.00362,(13:0.003692,14:0.014922,15:0.003667):1.644E-8,(45:0.003618,46:0.011125,47:0.003629):0.0,(4:0.00726,5:0.0,6:0.003599,7:0.003637):0.0,(9:0.0,10:0.0,11:0.003747,12:0.019662):0.010959,(20:0.011163,21:0.0,22:0.007225,23:0.0,24:0.004124):0.0,(28:0.009475,29:0.011089,30:0.0,31:0.003786,32:0.011382,33:0.0,34:0.015023,35:0.014576,36:0.014577,37:0.007344,38:0.011222,39:0.010917):0.0):0.0346665); END; BEGIN CODONS; CODONPOSSET * UNTITLED = 1: 3 - 357\3, 2: 1 - 358\3, 3: 2 - 356\3; CODONPOSSET CodonPositions = 1: 3 - 357\3, 2: 1 - 358\3, 3: 2 - 356\3; CODESET * UNTITLED = universal: 1 - 358; END; BEGIN paup; set autoclose = yes; constraints tree = ( 48 , ( ( ( 8 , 27 ) , ( 42 , 26 ) ) , ( ( 40 , 41 ) , ( ( ( 43 , 44 ) , 19 ) , ( ( ( ( 1 , 2 , 3 ) , ( 28 , 29 , 30 , 31 , 32 , 33 , 34 , 35 , 36 , 37 , 38 , 39 ) ) , ( 9 , 10 , 11 , 12 ) ) , ( 18 , ( ( 46 , 45 , 47 ) , ( ( 20 , 21 , 22 , 23 , 24 ) , ( ( ( 6 , 7 , 5 , 4 ) , 25 ) , ( ( 16 , ( 13 , 14 , 15 ) ) , 17 ) ) ) ) ) ) ) ) ) ); constraints uncon = ( 48 , ( 8 , 27 , 42 , 26 , ( 40 , 41 ) , ( 43 , 44 ) , 19 , ( 1 , 2 , 3 ) , ( 28 , 29 , 30 , 31 , 32 , 33 , 34 , 35 , 36 , 37 , 38 , 39 ) , ( 9 , 10 , 11 , 12 ) , 18 , ( 46 , 45 , 47 ) , ( 20 , 21 , 22 , 23 , 24 ) , ( 6 , 7 , 5 , 4 ) , 25 , 16 , ( 13 , 14 , 15 ) , 17 ) ); outgroup Trio121; END; BEGIN SETS; TAXSET shortbranch = 1 - 2 5 8 11 15 - 21 25 - 27 29 - 30 40 - 42 44 47 - 48; END;