#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on April 26, 2024; 9:09 GMT TreeBASE (cc) 1994-2008 Study reference: Santos S., Taylor D., Kinzie iii R., Hidaka M., Sakai K., & Coffroth M. 2002. Molecular phylogeny of symbiotic dinoflagellates inferred from partial chloroplast large subunit (23S)-rDNA. Molecular Phylogenetics and Evolution, 23(2): 97-111. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S814] BEGIN TAXA; TITLE Taxa1; DIMENSIONS NTAX=20; TAXLABELS Aiptasia_pallida Aiptasia_pulchella Briareum_asbestinum_571 Briareum_asbestinum_579 Cassiopea_xamachana Free_living_Symbiodinium_sp._CCMP421 Haliclona_koremella Heterocapsa_triquetra Montipora_verrucosa Plexaura_flexuosa Plexaura_kuna_JN120.1 Plexaura_kuna_Pk702 Pocillpora_damicornis Proceratium_reticulatum Sinularia_sp._Sin Tridacna_gigas Unknown_anemone_Ua2 Unknown_anemone_Ua31 Unknown_host_Y109 Zoanthus_sociatus ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M231] TITLE Symbiodinium_cp23S_rDNA_MP; LINK TAXA = Taxa1; DIMENSIONS NCHAR=1006; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=N GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 650 660 670 680 690 700 710 720 730 740 750 760 770 780 790 800 810 820 830 840 850 860 870 880 890 900 910 920 930 940 950 960 970 980 990 1000 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Aiptasia_pallida NNNNNNNACTATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGCTCGCTAAGAC--CACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAGTACA----------------------CA-------------TCCAGG---------------CGTTTA----TAAGCTGATGGCCCCAA---------------GAAGCGAGACGATGACGA-----TAAAGAGCCAGAAGATGCAGCGTGGT-------------------------------------------AAA-A-CAAGA---CTGTTTAATTGGGGCGATAAGCTTATCTA-ATCCACCTAAGGTGAACAAAGCCATCCAATGA---GCC----------------------------------------------------------------------------------CAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-GAAGTCCTTGCC--AGTATTTAAATG-CTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGGAATACGAAAGCT-CACATTATCAAGAAAAATGCACCTCGATGTCGGCTTATC-ATCACCAAAATCTGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATGGNN Aiptasia_pulchella NNNNNNNACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTG------------ACACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCAGCTTT------------------AAATCAACAAACAATGAAATCCATC---------------TTGTTGCTTCTCCGC------------TTTTAAAATTG--------------------------CTAAAGCCTTACAAGA----------------------------------------------TTT----ACAACATCAAGACCACTGTTTAATTGGGGCGATAACCTTATCCACAGCCACCTAAGGTGAACAAAGCGATACAAGGA---TCCTAAATACTAATT------------------------------------------------------------------TGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCCAAGGT-CACATTATCAAGAATAAAGCACCTCGATGTCGGCTTATC-TCAACCAAGGTAAGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAATATT-GGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCAATACNNNNNNN Briareum_asbestinum_571 GGCTGTAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTG------------ACACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCAGCTTT------------------AAATG-----------AAATCCATC---------------TTGTTGCTTCTCCGC----------------TAAATTG-TAAATG-----CCCGAAGG-----GCAAAAGCCTTACAAGA----------------------------------------------TTT----ACAACATCAAGACCACTGTTTAATTGGGGCGATAACCTTATCCA-TTACACCTAAGGTGAACAAAGCGATACAAGGA---TCCTAAATACTAATT------------------------------------------------------------------TGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCCAAGGT-CACATTATCAAGAATAAAGCACCTCGATGTCGGCTTATC-TCAACCAAGGTAAGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAATATT-GGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCAANNNNNNNNNN Briareum_asbestinum_579 NNNNNNAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGTTG------------ACACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCA--TTTACCA----GAATGGATTCACTTATCGCTAG---------CATT---CATTTATT-ATCTTGTTGCTTCTCCGC-------------TTTTTAATTGCTAAAGCCTTATCCCGAAGGAATCCACCGAAGGTGGACAAGA----------------------------------------------TTT----ACAACATCAAGACCACTGTTTAATTGGGGCGATAACCTTATCCACAGCCAACTAAGGTGAACAAAGCGATACAAGGA---TCCTAAATACTAATT------------------------------------------------------------------TGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATTTACCAGATTCAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATACTCAAGGT-CACATTATCAAGAATAAAGCACCTCGATGTCGGCTTATC-TCAACCAAGGTAAGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAATATT-GGTGGGAGTGCTCATCCCATAAAAAGGTACGTGAGCTGGGTTCAATACGATNNNN Cassiopea_xamachana NNNNNNNNNNNNNNNNNNNNNNNNNNNGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGTGAGCTAAGAC--CACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAGTACA----------------------CA-------------TCCAGG---------------CGTTTA----TAAGCTGATGGCCCCAA---------------GAAGCGAGACGATGACGA-----TAAAGAGCCAGAAGATGCAGCGTGGT-------------------------------------------AAACA-CAAGA---CTGTTTAATTGGGGCGATAAGCTTATCTA-ATCCACCTAAGGTGAACAAAGCCATCCAATGA---GCC----------------------------------------------------------------------------------CAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-GAAGTCCTTCCC--AGTATTTAAATG-CTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAAGCT-CACATTATCAAGAAAAATGCACCTCGATGTCGGCTTATC-ATCACCAAAATCTGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGNNNNNNNNNNNNNNN Free_living_Symbiodinium_sp._CCMP421 GGCTGTAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCCGAAGATCAAG--CACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTTGG------------------------------CACCAAACCTTTATAAAATTGCTATCACCTGCACAAATACCTCTTAAAGAGGCTTGCTTGAGCCTAGGTGTCAGTTGGGA-----------------------------------------------------------------------------TTT------AAGATCAAGACCACTGTTTAATTGGGGCGATAACCTTATCTA-AGCCACCTAAGGTGAACAAAGCGATACAAGGA---TCCTTAA--CA----------------------------------------------------------------------TGCCCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCCGAAATACCCAAGGT-CACATTATCAATATTCCAGCGCCTCGATGTCGGCTTATCATCATCCTAAATTTGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGATTATTGGGTGGGAGTGCTCATCCCGTAATAAGGTACGTGAGCTGGGTTCAATNNNNNNNNN Haliclona_koremella NNNNNTAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATGGAACAAATTGATAGCTGTCTTTTACTTACATCATGGTGAAATATTCTTCAGTACAAATAATATGCTGTTG-TCTTTTT-GT--AGCTAAAGGACAAAAAGACCCTTTGAAGCTTAATAGAGATAGTTTTTCGAA------------------TTCTTTGTGCTAAAATATCAGA--------------------------------------------TTTTCTTGTATTTGC-------------------------------------AAGAGTTAATTGCAT---------------------------------------ATAACTTGATCAAGACCACTGTTTAATTGGGGCGATTTCCTTATTTA-ATTTACCTAAGGTGAACAAAGTAATAAAAGGA---TA-TAAAA--TTATT----------------------------------------------------------------------CAACTCAGTAGTTTAAAGATATAAATTTTACTTAATTTCCCATAGACGT-CTTGGGCTAGTTTTTAATGG-CTATCTTAATGAGCTTTAAAATAATTTATCTGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCTGCAATATTTAAGTT-CACATTTTCAAGAAAAATGCACCTCGATGTCGGCTTATCGTCA-CCAAAATATGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCATAATTCGGTACGTGAGCTGGGTTCAATACGNNNNNN Heterocapsa_triquetra GGCTGTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCTAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTCTCTTGCATAGATGTGGTGGTAAAATATTAGGTAGTGTGAAGATACTCTAACAA-------------CGTTATAGGACAAAAAGACCCTGTGAACCTTTATAGGGATAAAATTTAGTAGAGGTTCTATATTAACATATCGCTTCGGCTA----------GGATGGAAAAAGTGTGAGATACCATTCATTGAGAATAGAATAAGATAAATCAGTTAATTA-------------------TTAATAGCCTTTGATTCAACCTCGGTTGATCTTAGTGCACTGTA----------------------TATTTGTCAAATGTTAGATGGGCTATTTAATTGGGGCGATAACCTTCTTTAATCAAACAAAAGGTGAACAAAGCTATTGATACGG---GCTTTGT-------------------------------------------------------------------------TAAAGGACGAGTAAGTACAAAGATAGATCTGTGGCTTAATGGTATTCCTTTGTTTGATCC--AGTATTTAAATGG-TATCTTAGTGACCTTAAAATTAATTTATCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATTAAAATTAGAGC-TCACATTAAATTTG--CCAGTTTGGCACCTCGATGTCGGCTTATCTTTT-CAAAAATCTGTATT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGATTATT-GGTGGGAGTGCTCATCCCATAATAAGGTACCTGAGCTGGGTTCAAAACGATGGNN Montipora_verrucosa NNNNNNNNNNNNNACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTGAAGT-CGA-GTGACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTGGGT-AAC--------------TCATGATCTT---------------------AATTA------------------------------------TCTTATTGC---------ATCCC---------AGCTAAAGCTCTAC-AGATTACTGA---------------------------------------TTT-----CTCC--TAAGACCACTGTTTAATTGGGGCGATAACCTTATCCACAGCCAACTAAGGTGAACAAAGCGATACAAGGA---TCCTAAATACTAATT------------------------------------------------------------------TGACCAACTAATAAGTGTAAAGATACATGTTTTGCTTAATGGCCCAA-CAATTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATCTACCCGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATACCCAAGGT-CACATTATCAAGATTCATGTACCTCGATGTCGGCTTATCATT--CAAAAATAGGTAGT----------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTATTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACNNNNNNN Plexaura_flexuosa NNNNNTAACTATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTG------------ACACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCA--TTTAC-A----------TTTCACATTGTT-------------CATT-----ATTATTAATCTTGTTGCTTCTCCGCAAACCTGTGTTGTAGTCGAAGGGTTTTCTGTTCGACCCAACATTAATTGCTAAAGCCTTACAAGA----------------------------------------------TTT----ACAACATCAAGACCACTGTTTAATTGGGGCGATAACCTTATCCACAGCCACCTAAGGTGAACAAAGCGATACAAGGA---TCCTAAATACTAATT------------------------------------------------------------------TGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCCAAGGT-CACATTATCAAGAATAAAGCACCTCGATGTCGGCTTATC-TCAACCAAGGTAAGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAATATT-GGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCAATACGATGGNN Plexaura_kuna_JN120.1 NNNNNTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCTAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTCTCTTGCATAGATGTGGTGGTAAAATATTAGGTAGTGTGAAGATACTCTAACAA-------------CGTTATAGGACAAAAAGACCCTGTGAACCTTTATAGGGATAAAATTTAGTAGAGGTTCTATATTAATATATCGCTTCGGCTG----------GGATGGAAAAAGTTTGAGATACCATTCATTGAGAATAGAATAAGATAAATCAGTTAGTTAATG------------CACTCCCCTCTAGGGGTCCGGCTTTCCTAGAAGCTGGATGGTG-CACACGCAATA-CGCGTCATTA----TATTTGTCAAATGTTAGATGGGCTATTTAATTGGGGCGATAACCTTCTTTAATCAAACAAAAGGTGAACAAAGCTATTGATACGG---GCTTTGT-------------------------------------------------------------------------TAAAGGACGAATAAGTACAAAGATAGATCTGTGGCTTAATGGTATTCCTTTGTTTGATCC--AGTATTTAAATGG-TATCTTAGTGACCTTAAAATTAATTTATCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATTAAAATTAGAGC-TCACATTAAATTTG--CCAGTTTGGCACCTCGATGTCGGCTTATCTTTT-CAAAAATCTGTATT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGATTATT-GGTGGGAGTGCTCATCCCATAATAAGGTACCTGAGCTGGNNNNNNNNNNNNNNNN Plexaura_kuna_Pk702 NNNNNNNNNNATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTG------------ACACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCTGGTTAAC------GAAGTGTCCTCTGATAGCGTGTTGTTAAATCCATCGAAGCGGTGTTCATCTTGTTGCTTCTCCGC------------TTTTTTAATTG--------------------------CTAAAGCCTTACAAGA----------------------------------------------TTT----ACAACATCAAGACCACTGTTTAATTGGGGCGATAACCTTATCCACAGCCACCTAAGGTGAACAAAGCGATACAAGGA---TCCTTAA------TT------------------------------------------------------------------TGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGTAACTCTACGGATAACAGGCTTAATTTCCGCAATATCCAAGGT-CACATTATCAAGAATAAAGCACCTCGATGTCGGCTTATC-TCAACCAAGGTAAGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------CCAAATATT-GGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCANNNNNNNNNNN Pocillpora_damicornis GGCTGTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCTAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTCTCTTGCATAGATGTGGTGGTAAAATATTAGGTAGTGTGAAGATACTCTAACAA-------------CGTTATAGGACAAAAAGACCCTGTGAACCTTTATAGGGATAAAATTTAGTAGAGGTTCTATATTAATATATCGCTTCGGCTG----------GGATGGAAAAAGTTTGAGATACCATTCATTGAGAATAGAATAAGATAAATCAGTTAGTTATG-------------CACATCATGTGCTCACGCAATG----------------------------------CGCGTTTTA-----TATTTGTCAAATGTTAGATGGGCTATTTAATTGGGGCGATAACCTTCTTTAATCAAACAAAAGGTGAACAAAGCTATTGATACGG---GCTTTGT-------------------------------------------------------------------------TAAAGGACGAATAAGTACAAAGATAGATCTGTGGCTTAATGGTATTCCTTTGTTTGATCC--AGTATTTAAATGG-TATCTTAGTGACCTTAAAATTAATTTATCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATTAAAATTAGAGC-TCACATTAAATTTG--CCAGTTTGGCACCTCGATGTCGGCTTATCTTTT-CAAAAATCTGTATT-----------------------------------------------------------------------------------------------------------------------------------------------------------------------AAGATTATT-GGTGGGAGTGCTCATCCCATAATAAGGTACCTGAGCTGGGTTCAATACGNNNNNN Proceratium_reticulatum NNNNNTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCCAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTGTCTTGCATACATGTGCTGGTAAAATATTAGGTAGTGTGAAGATACGGTAACAA-------------CGTTATAGGACAAAAAGACCCTGTGAAGCTTTATAGGGATAAAATTTAGTACAGGTTCTATATTAATATATCTTCATTTC--------------ATGGAAAAACAGTGAGATACCATTCATTGAGAATACAAGAAG-----------------------------------TTGCTTGCAATAAGATAATTCACCAATGA----------------------------GTG------AAAGAGT--AATGTTAGATGGGCTGTTTAATTGGGGCGATAACCTTCTTTAATCAAACCAAAGGTGAACAAAGCTATTGCAGCAGA--GCTTTGA-------------------------------------------------------------------------TAAAGGACTAGTAAGTACAAAGATAGATGTGTAGCTTAATGGT---CAAGCGTTTGATCC--AGTATTTAAATGG-TATCTTAATGACCTTAAAATTAATCTACCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATATATTGGATAGC-TCACATTAT-CATT--AACGTTTTGCACCTCGATGTCGGCTTATCTTTT-CCAAAAGGCTAATTCCAAAAGAATTAAAGATGAAATATTCATTTAGCTAATGTATTAACACATGCATATATTATACGTATTATTATTTATTAATTTTACGAAGAGTTTATTCATTCATACATTAGTGCAAGAGTATTATTTTGCATAGCTTTTGGCTTTGTCTTTATTAGGTCAACGCAATAAGCTTATT-GGTGGGAGTGCTCATCCCATAACAAGGTACGTGAGCTGGGTTCAAAACGATGTAN Sinularia_sp._Sin NNNNNNNNNNATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCCGAAGT-CGA-GTGACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTGGGT-AAC-A------------TCGTGATCTT---------------------AATTA------------------------------------TCTTATTGC---------ATCCC---------AGCTAAAGCTCTAC-AGATTACTGA---------------------------------------TTT-----CTCC--TAAGACCACTGTTTAATTGGGGCGATAACCTTATCCACAGCCACCTAAGGTGAACAAAGCGATACAAGGA---TCCTAAATACTAATT------------------------------------------------------------------TGACCAACTAATAAGTGTAAAGATACATGTTTTGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATCTACCCGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATACCCAAGGT-CACATTATCAAGATTCATGTACCTCGATGTCGGCTTATCATT--CAAAAATAGGTAGT----------------------------------------------------------------------------------------------------------------------------------------------------------------------GTGTATTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCANNNNNNNNNNN Tridacna_gigas NNNNNTAACTATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGTGAGCTAAGAC--CACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAGTACA----------------------CA-------------TCCAGG---------------CGTTTGTATACAAGGTGATGGCCCCAA---------------GAAGCGAGACGATGACGA-----TAAAGAGCCAGAAGATGCAGCGTGGT-------------------------------------------AAACA-CAAGA---CTGTTTAATTGGGGCGATAAGCTTATCTA-ATCCACCTAAGGTGAACAAAGCCATCCAATCCT-CGCC----------------------------------------------------------------------------------CAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-GAAGTCCTTCCC--AGTATTTAAATG-CTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAAGCT-CACATTATCAAGAAAAATGCACCTCGATGTCGGCTTATC-ATCACCAAAATCTGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATGGCC Unknown_anemone_Ua2 NNNNNNNNNNNNNNNGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGAATCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGTCTAAGTAATACATCTAACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTTTGATTG-C-A----------------------------------------------------------------------------------TTTTTTA--GCTTA-------GGCCGCTC---------AAAGATCTATATCTGAGGTGTGCCTTAATAAA---------TTTATTTATTGGTCTTGCCTTTAAAATAAAGATCAAGACCACTGTTTAATTGGGGCGATAACCTTATTTA-ATCTACCTAAGGTGAACAAAGCGATACAAGGATTCTCCTAAATCACACCTCAGATATAGATCTTTAACCCCCGATTGGCCTAGGCTGTTAATGATCTATATCTGAGGTGTGCACGATGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCCCAATCAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATCTACCAACACTAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCTAAGTT-CATATTATCAAGAAAAATGCACCTCGATGTCGGCTTATCATCA-CCAAAATATGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCGTAAATAGGTACGTGAGCTGGGTTCAATACGNNNNNN Unknown_anemone_Ua31 NNNNNNNNNNNNNNNNGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACGAATAATATGCTGACTAAAGTTTA-TTAACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTGGGT-AAC-A------------TTCTCAATAC---------------------AAATAT-----------------------------------TCTTATTGC---------ATGCC---------AGCTAAAGTAGTAAATTATTGGT-----------------------------------------TTT-----CTCC--TAAGACCACTGTTTAATTGGGGCGATAACCTTATCAACAGCCACCTAAGGTGAACAAAGCGATACAAGGA---TCCTAAA--CT--TT------------------------------------------------------------------TGACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-CAAGTCCTTCCC--AGTACTTAAATG-CTATCTTAATGAGCTTTAAATTAATTTACCCGAGTTAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATTAAAGGT-CACATTATCACGAAAAATGTACCTCGATGTCGGCTTATCATCA-CTAAAATAGGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TTAATTATT-GGTGGGAGTGCTCATCCCGTAAATTGGTTCGTGAGCTGGGTTCAATNNNNNNNNN Unknown_host_Y109 NNNNNNAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGCTCACTAAGAC--CACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAGTATC-------------------------------------TCCATG---------------CCCCCC-AT-CA----------CCCAA---------------GACACAAGAAGCG-A-G-------AAAGACAGGCATTACTACTATGCAACGACCGAAGTTAGTCT-------------------------------A--AAGA---CTGTTTAATTGGGGCGATAAGCTTATCTA-ATCCACCTAAGGTGAACAAAGCCATCCAATCA---AC-----------------------------------------------------------------------------------CAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-GAAGTCCTTCCC--AGTATTTAAATG-CTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAAGCT-CACATTATCAAGAAAAATGCACCTCGATGTCGGCTTATC-ATCACCAAAATCTGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATNNNN Zoanthus_sociatus NNNNNTAACTATAACGGGCCTAAGGTAGGAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGTGAGCTAAGAC--CACACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAGTACA----------------------CC-------------TCCA-----------------CTCTTC---ACATACCATCAGCCCCAA---------------CAAGCGAGACGATCA-GA-----TAAAGAGCCAGAAGATGCAAGAGG--------------------------------------------AC--CA--AAGA---CTGTTTAATTGGGGCGATAAGCTTATCTA-ATCCACCTAAGGTGAACAAAGCCATCCAATGA---GCC----------------------------------------------------------------------------------CAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCCCAA-GAAGTCCTTCCC--AGTATTTAAATG-CTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAAGCT-CACATTATCAAGAAAAATGCACCTCGATGTCGGCTTATC-ATCACCAAAATCTGTAGC-----------------------------------------------------------------------------------------------------------------------------------------------------------------------TAGCTTATT-GGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATGGCC ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = Symbiodinium_cp23S_rDNA_MP) = N: 1-1006; CODONPOSSET CodonPositions (CHARACTERS = Symbiodinium_cp23S_rDNA_MP) = N: 1-1006; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M230] TITLE Symbiodinium_cp23S_rDNA_ML; LINK TAXA = Taxa1; DIMENSIONS NCHAR=513; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=N GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Aiptasia_pallida NNNNNNNACTATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGCTCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAAAGACTGTTTAATTGGGGCGATAAGCTTATCTAATCCACCTAAGGTGAACAAAGCCATCCAATGACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCAGAAGTCTTGCCAGTATTTAAATGTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGGAATACGAAGCTCACTTATAGAAAAATGCACCTCGATGTCGGCTTATCATCCAAAATCTGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATGGNN Aiptasia_pulchella NNNNNNNACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTGCACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCAAAGACTGTTTAATTGGGGCGATAACCTTATCCAAGCCACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCAAGGTCACTTATAGAATAAAGCACCTCGATGTCGGCTTATCTCCCAAGGTAAGTAGCCCAAATATTGGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCAATACNNNNNNN Briareum_asbestinum_571 GGCTGTAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTGCACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCAAAGACTGTTTAATTGGGGCGATAACCTTATCCATTACACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCAAGGTCACTTATAGAATAAAGCACCTCGATGTCGGCTTATCTCCCAAGGTAAGTAGCCCAAATATTGGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCAANNNNNNNNNN Briareum_asbestinum_579 NNNNNNAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGTTGCACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCAAAGACTGTTTAATTGGGGCGATAACCTTATCCAAGCCAACTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATTTACCAGATTCAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATACTAAGGTCACTTATAGAATAAAGCACCTCGATGTCGGCTTATCTCCCAAGGTAAGTAGCCCAAATATTGGTGGGAGTGCTCATCCCATAAAAAGGTACGTGAGCTGGGTTCAATACGATNNNN Cassiopea_xamachana NNNNNNNNNNNNNNNNNNNNNNNNNNNGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGTGCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAAAGACTGTTTAATTGGGGCGATAAGCTTATCTAATCCACCTAAGGTGAACAAAGCCATCCAATGACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCAGAAGTCTTCCCAGTATTTAAATGTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAGCTCACTTATAGAAAAATGCACCTCGATGTCGGCTTATCATCCAAAATCTGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGNNNNNNNNNNNNNNN Free_living_Symbiodinium_sp._CCMP421 GGCTGTAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCCGCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTTAAGACTGTTTAATTGGGGCGATAACCTTATCTAAGCCACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCCGAAATACCAAGGTCACTTATATATTCCAGCGCCTCGATGTCGGCTTATCTCCCTAAATTTGTAGCTAGATTATTGGTGGGAGTGCTCATCCCGTAATAAGGTACGTGAGCTGGGTTCAATNNNNNNNNN Haliclona_koremella NNNNNTAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATGGAACAAATTGATAGCTGTCTTTTACTTACATCATGGTGAAATATTCTTCAGTACAAATAATATGCTGTTGAGCTAAAGGACAAAAAGACCCTTTGAAGCTTAATAGAGATAGTTTTTCAAGACTGTTTAATTGGGGCGATTTCCTTATTTAATTTACCTAAGGTGAACAAAGTAATAAAAGGAACAACTCAGTAGTTTAAAGATATAAATTTTACTTAATTTCTGACGTCTTGGGAGTTTTTAATGGTATCTTAATGAGCTTTAAAATAATTTATCTGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCTGCAATATTAAGTTCACTTTTAGAAAAATGCACCTCGATGTCGGCTTATCTCCCAAAATATGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCATAATTCGGTACGTGAGCTGGGTTCAATACGNNNNNN Heterocapsa_triquetra GGCTGTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCTAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTCTCTTGCATAGATGTGGTGGTAAAATATTAGGTAGTGTGAAGATACTCTAACAACGTTATAGGACAAAAAGACCCTGTGAACCTTTATAGGGATAAAATTTAAGATCTATTTAATTGGGGCGATAACCTTCTTTATCAAACAAAAGGTGAACAAAGCTATTGATACGGGGACGAGTAAGTACAAAGATAGATCTGTGGCTTAATGGTCTTTGTTGATCCAGTATTTAAATGTATCTTAGTGACCTTAAAATTAATTTATCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATTAAAATTAGAGCTCACATAATTTGCCAGTTTGGCACCTCGATGTCGGCTTATCTTCAAAAATCTGTATTAAGATTATTGGTGGGAGTGCTCATCCCATAATAAGGTACCTGAGCTGGGTTCAAAACGATGGNN Montipora_verrucosa NNNNNNNNNNNNNACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTGCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTGAAGACTGTTTAATTGGGGCGATAACCTTATCCAAGCCAACTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGTAAAGATACATGTTTTGCTTAATGGCACAATTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATCTACCCGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATACCAAGGTCACTTATAGATTCATGTACCTCGATGTCGGCTTATCTTCAAAAATAGGTAGTTGTATTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACNNNNNNN Plexaura_flexuosa NNNNNTAACTATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTGCACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCAAAGACTGTTTAATTGGGGCGATAACCTTATCCAAGCCACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCAAGGTCACTTATAGAATAAAGCACCTCGATGTCGGCTTATCTCCCAAGGTAAGTAGCCCAAATATTGGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCAATACGATGGNN Plexaura_kuna_JN120.1 NNNNNTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCTAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTCTCTTGCATAGATGTGGTGGTAAAATATTAGGTAGTGTGAAGATACTCTAACAACGTTATAGGACAAAAAGACCCTGTGAACCTTTATAGGGATAAAATTTAAGATCTATTTAATTGGGGCGATAACCTTCTTTATCAAACAAAAGGTGAACAAAGCTATTGATACGGGGACGAATAAGTACAAAGATAGATCTGTGGCTTAATGGTCTTTGTTGATCCAGTATTTAAATGTATCTTAGTGACCTTAAAATTAATTTATCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATTAAAATTAGAGCTCACATAATTTGCCAGTTTGGCACCTCGATGTCGGCTTATCTTCAAAAATCTGTATTAAGATTATTGGTGGGAGTGCTCATCCCATAATAAGGTACCTGAGCTGGNNNNNNNNNNNNNNNN Plexaura_kuna_Pk702 NNNNNNNNNNATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCTTAATAACGACCTGCATGAAACATAGAACGATTTGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCTGCACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTCTAAGACTGTTTAATTGGGGCGATAACCTTATCCAAGCCACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATTTACCAGAGTGAAGTAACTCTACGGATAACAGGCTTAATTTCCGCAATATCAAGGTCACTTATAGAATAAAGCACCTCGATGTCGGCTTATCTCCCAAGGTAAGTAGCCCAAATATTGGTGGGAGTGCTCATCCCGTAAAAAGGTACGTGAGCTGGGTTCANNNNNNNNNNN Pocillpora_damicornis GGCTGTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCTAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTCTCTTGCATAGATGTGGTGGTAAAATATTAGGTAGTGTGAAGATACTCTAACAACGTTATAGGACAAAAAGACCCTGTGAACCTTTATAGGGATAAAATTTAAGATCTATTTAATTGGGGCGATAACCTTCTTTATCAAACAAAAGGTGAACAAAGCTATTGATACGGGGACGAATAAGTACAAAGATAGATCTGTGGCTTAATGGTCTTTGTTGATCCAGTATTTAAATGTATCTTAGTGACCTTAAAATTAATTTATCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATTAAAATTAGAGCTCACATAATTTGCCAGTTTGGCACCTCGATGTCGGCTTATCTTCAAAAATCTGTATTAAGATTATTGGTGGGAGTGCTCATCCCATAATAAGGTACCTGAGCTGGGTTCAATACGNNNNNN Proceratium_reticulatum NNNNNTAACTATAACGGTCCCAAGGTAGCAAATTTCCTTGTCGTCCAAATAACGACCTGCATGAAAGATAGAACGATTCGATAGCTGTCTTGCATACATGTGCTGGTAAAATATTAGGTAGTGTGAAGATACGGTAACAACGTTATAGGACAAAAAGACCCTGTGAAGCTTTATAGGGATAAAATTTAAGATCTGTTTAATTGGGGCGATAACCTTCTTTATCAAACCAAAGGTGAACAAAGCTATTGCAGCAGGGACTAGTAAGTACAAAGATAGATGTGTAGCTTAATGGTCAGCGTTGATCCAGTATTTAAATGTATCTTAATGACCTTAAAATTAATCTACCAAATAAAAGCTACTCAAGGGATAACAGGCTTAATATATTGGATAGCTCACATATCATTAACGTTTTGCACCTCGATGTCGGCTTATCTTCCAAAAGGCTAATTAAGCTTATTGGTGGGAGTGCTCATCCCATAACAAGGTACGTGAGCTGGGTTCAAAACGATGTAN Sinularia_sp._Sin NNNNNNNNNNATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAATAATATGCTGCCGCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTGAAGACTGTTTAATTGGGGCGATAACCTTATCCAAGCCACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGTAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATCTACCCGAGTGAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATACCAAGGTCACTTATAGATTCATGTACCTCGATGTCGGCTTATCTTCAAAAATAGGTAGTTGTATTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCANNNNNNNNNNN Tridacna_gigas NNNNNTAACTATAACGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGTGCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAAAGACTGTTTAATTGGGGCGATAAGCTTATCTAATCCACCTAAGGTGAACAAAGCCATCCAATCCCCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCAGAAGTCTTCCCAGTATTTAAATGTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAGCTCACTTATAGAAAAATGCACCTCGATGTCGGCTTATCATCCAAAATCTGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATGGCC Unknown_anemone_Ua2 NNNNNNNNNNNNNNNGGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGAATCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGTCTAACTAAAGGACAAAAAGACCCTTTGAAGCTTTATAGGGATAAAACTTTAAGACTGTTTAATTGGGGCGATAACCTTATTTAATCTACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTTGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATCTACCAACACTAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATCAAGTTCATTTATAGAAAAATGCACCTCGATGTCGGCTTATCTCCCAAAATATGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCGTAAATAGGTACGTGAGCTGGGTTCAATACGNNNNNN Unknown_anemone_Ua31 NNNNNNNNNNNNNNNNGGCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACGAATAATATGCTGACTCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAACTTGAAGACTGTTTAATTGGGGCGATAACCTTATCAAAGCCACCTAAGGTGAACAAAGCGATACAAGGACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCACAAGTCTTCCCAGTACTTAAATGTATCTTAATGAGCTTTAAATTAATTTACCCGAGTTAAGCTACTCTACGGATAACAGGCTTAATTTCCGCAATATTAAGGTCACTTATCGAAAAATGTACCTCGATGTCGGCTTATCTCCTAAAATAGGTAGCTTAATTATTGGTGGGAGTGCTCATCCCGTAAATTGGTTCGTGAGCTGGGTTCAATNNNNNNNNN Unknown_host_Y109 NNNNNNAACTATAACGGTCCTAAGGTAGCAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGCTCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAAAGACTGTTTAATTGGGGCGATAAGCTTATCTAATCCACCTAAGGTGAACAAAGCCATCCAATCACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCAGAAGTCTTCCCAGTATTTAAATGTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAGCTCACTTATAGAAAAATGCACCTCGATGTCGGCTTATCATCCAAAATCTGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATNNNN Zoanthus_sociatus NNNNNTAACTATAACGGGCCTAAGGTAGGAAATTTCCTTGTCGTCCTAATAACGACCTGCATGAAACATAGAACGATTCGATAGCTGTCTTGCACACACATCATGGTAAAATATTCATCAGTACAAAGAATATGCTGGTGCACTAAAGGACAAAAAGACCCTCTGAAGCTTTATAGGGATAAAATCTAAAGACTGTTTAATTGGGGCGATAAGCTTATCTAATCCACCTAAGGTGAACAAAGCCATCCAATGACCAACTAATAAGTGCAAAGATACATGTTTCGCTTAATGGCAGAAGTCTTCCCAGTATTTAAATGTATCTTAATGAGCTTAAAATTAATCTACCAACACCAAGCTACTCTACGGATAACAGGCTTAATTTCGGCAATACGAAGCTCACTTATAGAAAAATGCACCTCGATGTCGGCTTATCATCCAAAATCTGTAGCTAGCTTATTGGTGGGAGTGCTCATCCCGTAAATCGGTACGTGAGCTGGGTTCAATACGATGGCC ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = Symbiodinium_cp23S_rDNA_ML) = N: 1-513; CODONPOSSET CodonPositions (CHARACTERS = Symbiodinium_cp23S_rDNA_ML) = N: 1-513; END; BEGIN TREES; TITLE Tb6085; LINK TAXA = Taxa1; TRANSLATE 1 Zoanthus_sociatus, 2 Unknown_host_Y109, 3 Unknown_anemone_Ua31, 4 Unknown_anemone_Ua2, 5 Tridacna_gigas, 6 Sinularia_sp._Sin, 7 Proceratium_reticulatum, 8 Pocillpora_damicornis, 9 Plexaura_kuna_Pk702, 10 Plexaura_kuna_JN120.1, 11 Plexaura_flexuosa, 12 Montipora_verrucosa, 13 Heterocapsa_triquetra, 14 Haliclona_koremella, 15 Free_living_Symbiodinium_sp._CCMP421, 16 Cassiopea_xamachana, 17 Briareum_asbestinum_579, 18 Briareum_asbestinum_571, 19 Aiptasia_pulchella, 20 Aiptasia_pallida; TREE Fig._4 = [&R] (7,((16,20,5,2,1)Symbiodinium_clade_A,((((19,18,9,17,11)Symbiodinium_clade_B,((12,6)Symbiodinium_Clade_F,3)Symbiodinium_Clades_C_F)Symbiodinium_Clades_B_C_F,15)Symbiodinium_Clades_B_C_E_F,(14,4)Symbiodinium_Clades_D1_D2)Symbiodinium_Clades_B_C_D_E_F)Symbiodinium,((10,8),13)Heterocapsa)Dinoflagellates; END; BEGIN TREES; TITLE Tb6086; LINK TAXA = Taxa1; TRANSLATE 1 Zoanthus_sociatus, 2 Unknown_host_Y109, 3 Unknown_anemone_Ua31, 4 Unknown_anemone_Ua2, 5 Tridacna_gigas, 6 Sinularia_sp._Sin, 7 Proceratium_reticulatum, 8 Pocillpora_damicornis, 9 Plexaura_kuna_Pk702, 10 Plexaura_kuna_JN120.1, 11 Plexaura_flexuosa, 12 Montipora_verrucosa, 13 Heterocapsa_triquetra, 14 Haliclona_koremella, 15 Free_living_Symbiodinium_sp._CCMP421, 16 Cassiopea_xamachana, 17 Briareum_asbestinum_579, 18 Briareum_asbestinum_571, 19 Aiptasia_pulchella, 20 Aiptasia_pallida; TREE Fig._3 = [&R] (7,((16,20,5,2,1)Symbiodinium_clade_A,((((((19,18,17),11),9)Symbiodinium_clade_B,((12,6)Symbiodinium_Clade_F,3)Symbiodinium_Clades_C_F)Symbiodinium_Clades_B_C_F,15)Symbiodinium_Clades_B_C_E_F,14,4)Symbiodinium_Clades_B_C_D_E_F)Symbiodinium,(10,8,13)Heterocapsa)Dinoflagellates; END;