#NEXUS BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=32; TAXLABELS 'Rhizobium grahamii CCGE 502 pRgrCCGE502_Ch EPE96923' Rhizobium_grahamii_CCGE_502_pRgrCCGE502b_EPE94573 Rhizobium_grahamii_CCGE_502_pRgrCCGE502b_EPE94986 Rhizobium_grahamii_CCGE_502_pRgrCCGE502a_EPE93859 'Rhizobium mesoamericanum pRmeSTM3625_2 WP_007539588' 'Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537658' 'Rhizobium mesoamericanum pRmeSTM3625_3 WP_007538604' 'Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537813' Rhizobium_mesoamericanum_pRmeCCGE501d_KF866302 Rhizobium_mesoamericanum_pRmeCCGE501c_KF866303 Rhizobium_mesoamericanum_pRmeCCGE501_KF866304 Rhizobium_mesoamericanum_pRmeCCGE501d_KF866301 Rhizobium_mesoamericanum_pRmeCCGE501_KF866305 'Rhizobium etli CFN 42 pRetCFN42a YP_471770' 'Rhizobium etli CFN 42 pRetCFN42f YP_472831' 'Rhizobium etli CFN 42 pRetCFN42e YP_472620' 'Rhizobium etli CFN 42 pRetCFN42c YP_472165' 'Rhizobium etli CFN 42 pRetCFN42b YP_471933' 'Rhizobium etli CFN 42 pRetCFN42d NP_660041' 'Rhizobium etli CFN 42 pRetCFN42f YP_473187' 'Rhizobium leguminosarum bv. viciae 3841 pRL10 YP_770305' 'Rhizobium leguminosarum bv. viciae 3841 pRL8 YP_770903' 'Rhizobium leguminosarum bv. viciae 3841 pRL12 YP_764519' 'Rhizobium leguminosarum bv. viciae 3841 pRL11 YP_771035' 'Rhizobium leguminosarum bv. viciae 3841 pRL7 YP_770826' 'Rhizobium leguminosarum bv. viciae 3841 pRL9 YP_765300' 'Rhizobium tropici CIAT 899 pRtrCIAT899a YP_007335860' 'Rhizobium tropici CIAT 899 pRtrCIAT899b YP_007336360' 'Rhizobium tropici CIAT 899 pRtrCIAT899c YP_007338265' 'Sinorhizobium fredii HH103 pSfrHH103c YP_005191303' 'Sinorhizobium fredii GR64 pSfrGR64a YP_004716838' 'Sinorhizobium meliloti 1021 pSymA NP_436539' ; END; BEGIN CHARACTERS; TITLE RepB_Althabegoiti_2013; DIMENSIONS NCHAR=209; FORMAT DATATYPE = Protein GAP = - MISSING = ?; MATRIX 'Rhizobium grahamii CCGE 502 pRgrCCGE502_Ch EPE96923' VISLDPGDLDGSFVADRIG-DDDEAF-QSLKEAIRHSGQSTPILVRPHPTDDGRYMIVFGHRRARAARELGLKVRAVVKPLADIEHVIAQGQENTARADLTFIEKAIFANRLQRSGMSRD--VLKTALTVDDSLLSRMLSVAEAVPDAVLDALGAAKGIGRDRWEELKKLL-LNPSVSARARETVEEQAFVACETDEAKFLFLLSTLKS Rhizobium_grahamii_CCGE_502_pRgrCCGE502b_EPE94573 VVDVDPVEVAPSSIPDRFDGAYDDAAIEEIAASIRERGQIVPGLIRPFKGGGAPYQIVFGRRRLAAVKMLGLKFRAIVRDLSDEEAIIFQGEENANRNDLSFIEKCAFALSQEQAGYRRD--VICASLATGKSHISEMLRIATAIPRDVLVQIGPSPEIGRRRWIDFADAFAASQDGADRIRQSLGQDRHGGPKD---RFAVALSALKS Rhizobium_grahamii_CCGE_502_pRgrCCGE502b_EPE94986 VVELEPDAIDMSFVRDRLA-DMPRNLDDELVHSIGENGQEVPILVRVHPDDDKRYQVVYGHRRLQAVRLLGRKVQAIIRKLDDVDVVIAQGIENSARRNLSYVERAVFAFNLESKGFERP--LIMKALSTDKTELSKLISVAKAIPMDVIVAIGAAPAAGRRKWLALAQGW--TSATASRLRTLLASERFAREDTDR-RFDLVVAELAR Rhizobium_grahamii_CCGE_502_pRgrCCGE502a_EPE93859 VISIEPASIDTSKIVDRIPIEVDPAF-DALVESIAEHGQQVPILVRPNPQAPGRFQIAYGRRRLKAAEKLRRPVRAIVRNLSDSQLYVAQGRENLDRKDLSFIEKAFFAKNLEDDGCDRP--TIIAALVSDKADVSRYVAIARQIPQDLVRLIGPAPKAGRARWMTLVEHL-ASPAKLDTAHELLAVFAEERLESDA-RFDGLLRALSE 'Rhizobium mesoamericanum pRmeSTM3625_2 WP_007539588' VISIEPASIDTSKIVDRIPIEVDPAF-DALVESIAEHGQQVPILVRPNPQAPGRFQIAYGRRRLKAAEKLGRPVRAIVRNLSDSQLYVAQGRENLDRKDLSFIEKAFFAKNLEDDGCDRP--TIIAALVSDKADVSRYVAIARQVPQDLVRLIGPAPKAGRARWMTLVEHL-ASPAKLDTAHELLAGFAEERLESDA-RFDALLRALSE 'Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537658' VVELDPDLIDVSFVRDRLA-ELPQDLADELVRSIEENGQEVPILVRQHPQVAARYQVVYGHRRLQALRLLGRKVQAIIRKLDDVDVVIAQGIENSARRNLSYIERAVFAFNLASKGFERP--VIMTALSTDKTELSKLISVAKSIPMDVIMAIGPAPAAGRRKWIALAQDW--TNATRTRLQGLLASENFAAQESDR-RFELVVTELAT 'Rhizobium mesoamericanum pRmeSTM3625_3 WP_007538604' IVELDPRLLDVSFVADRLS-DDDEEY-QELKQAIKDAGQTTPILVRTNPKDAQRYMVVFGHRRLKVARELGIPVKAVVKKLDDIASAIAQGQENSARSNLSFIERAYFAQNLLASGMTKD--VIRSSLAIDEAMLSKMLGVVEVVPASVMKALGASKKIGRDKWLSLRQIL-LAPALLKVATEYAGDAEFLKLEEDS-RFDNLHGYLTR 'Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537813' IVEVDPDDVGPSSIPDRFDGAYDEAAIEEIATSIKERGQIVPGLIRPQ-GDGLPYQIVFGRRRLAAVKMLGLKFRAIVRELSDEEAIVFQGEENANRNDLSFIEKCAFALSQEQAGYRRD--VICASLATGKSHVSEMLRIATAIPRDVLLAIGPSPEIGRRRWIDFANAFAKRQDGAARIKQSLGRD--MAIAASD-RFSVALGALTA Rhizobium_mesoamericanum_pRmeCCGE501d_KF866302 VVELDPDLIDMSFVRDRLA-ELPQDLADELVRSIEESGQEVPILVRQHPQDAARYQVVYGHRRLQALRLLGRKVQAIIRKLDDVDVVIAQGIENSARRNLSYIERAVFAFNLASKGFERP--VIMKALSTDKTELSKLISVAKSIPMDVIMAIGAAPAAGRRKWIALAQDW--GNATTSRLQGLLASENFAAQESDR-RFELVVNELAT Rhizobium_mesoamericanum_pRmeCCGE501c_KF866303 VISIEPASIDTSKIVDRIPIEVDPAF-DALVESIAEHGQQVPILVRPNPQATGRFQIAYGRRRLKAAEKLGRPVRAIVRNLSDSQLYVAQGRENLDRKDLSFIEKAFFAKNLEDDGCDRP--TIIAALVSDKADVSRYVAIARQVPQDLVRLIGPAPKAGRARWMTLVEHL-ASPAKLDTAHELLAGFAEERLESDA-RFDALLRALSE Rhizobium_mesoamericanum_pRmeCCGE501_KF866304 ITELDPDVIDAPDVTDRLE-ESDEHF-QEFAAQIKEHGQQVPILVRPHPTQEGRYQIAYGRRRLRAVKAAGRLVKAAVRQMSDEELILAQGQENSARKDLSYIEKALYSAELERKGYSRQ--LIIGALGVDKAAVSHLISTAARIPADVIRMIGPAPKAGRDRWVELANRT-EQKGALEKARKLL-QEALKGKSSDE-RFVAIFEGLAP Rhizobium_mesoamericanum_pRmeCCGE501d_KF866301 IVEVDPDDVAPSSIPDRFDGAYDEAAIEEIATSIKERGQIVPGLIRPHNGDGLPYQIVFGRRRLAAVKMLGLKFRAIVRELSDEEAIVFQGEENANRNDLSFIEKCAFALSQEQAGYRRD--VICASLATGKSHVSEMLRIATAIPRDVLLAIGPSPEIGRRRWIDFADAFAKRQDGAARIEQALVRD--MALAGSD-RFSVALGALKA Rhizobium_mesoamericanum_pRmeCCGE501_KF866305 IREIDPSLIDPSPYPDRLPDDGNESF-EAFKRSIATDGQKVPIQIRKHPSSNERYQIVYGHRRWLAAKQLGKPVKAIEVEISDLDLVLAQGIENANRQDLTWIERALFASRMDDAGIKAR--DIYAALSIEDAELARMRSVYRQIPLDVIEAIGRAPKIGRPRWVELAKAISQQPRALDAIRAVLVVKADPAEISDQ-RFQRALNVIKP 'Rhizobium etli CFN 42 pRetCFN42a YP_471770' VISIETASIDTSKIVDRIPIDVDPAF-DALVESIAEHGQQVPILVRPNPQASGRFQIAYGRRRVKAAEKLGRPVRAIVRNLSDSQLYIAQGRENLDRKDLSFIEKAFFAKNLEDDGCDRP--TIIAALVSDKADVSRYVAVARQVPEELVKLIGPAPKAGRARWMTLVEHL-SSPAKLATAHELVAGFAENRLQSDA-RLDALLRALSE 'Rhizobium etli CFN 42 pRetCFN42f YP_472831' IIELDPSLIDASFVSDRLA-IDAAEL-ADLVEQIREHGQQVPILVRPHPEAKGRYQVAYGHRRLAAIRDIGIKVRAVVRDLTDDQLVVSQGQENSARTNLSYIERALFASRLEERGFGRD--VIMAALSVDKAALSRMLIVMRQVPLDLINAIGAAPEIGRRRWLELGDRL--EKADVRTIIAELSADDARRISSDE-RFHRAL-VLAT 'Rhizobium etli CFN 42 pRetCFN42e YP_472620' IVELDPDLIDSSFVRDRLA-DQPLDLEDELVQSIADNGQEVPILVRRHPEDGERYQIAYGHRRLQAIKLLKRKVQAIVRQLDDTDVVIAQGIENSARRNLSYIERAVFALTLELKGFERP--VIMKALSTDKTELSKLLSVAKAIPAEIVRSVGAAPGIGRRKWMALAQDW--NGTTAARLAKLIASDGFRAEESDR-RFELLVAELAR 'Rhizobium etli CFN 42 pRetCFN42c YP_472165' VLEIDAAAVEMSFIRDRIPVDQDSEF-ERLKQSIQDSGQQVPILVRPDPVKAGHYQAAYGHRRLRAAAELGVPVKAVVRKLTDEELILAQGQENGPRVDLSFIERALFARRMDEHGFSRD--MIARALATDKPETSRLLQVAQTIDPEIILAIGPAPKVGRPRWLAFAEKF-RETGGQKKAQAAIRAASFEALETNG-RFDAVWKVLEE 'Rhizobium etli CFN 42 pRetCFN42b YP_471933' VIDLDPALIEDSFVTDRLA-HTDEQF-RELVEAIRLRGQDSPILVRPHPEREGRYQIAFGHRRARAAKELGRPVRAVVKRLDDRDHVIAQGQENSARADLSFIERTMFADKLDTLGFDRE--TIMSALSADKTTVSKMLSVTKRIPAEVLAAIGVAKTTGRDRWHDLSAKF-ETENIAARAIEFTRSVEFETAEPDA-RFDMLVAFISR 'Rhizobium etli CFN 42 pRetCFN42d NP_660041' VVELNASSIEPSFVQDRM----QGDI-EGLLASIREQGQQVPILVRPHPVKPAHYQVAFGHRRLRAVSELGLPVKAVVRDLTDEQLVVAQGQENNEREDLTFIEKARFAHKLNKQ-FPRE--IVIAAMSIDKSNLSKMLLLVDALPSELIDAIGAAPGVGRPSWQQLAELV-EKASPPAGAAKYAASEEVQALPSSE-RFKAVIDHLKP 'Rhizobium etli CFN 42 pRetCFN42f YP_473187' VVDLDPELVETSFVKDRLS-EDDEAF-RTLVEAIRARGQDTPILVRPHARIDGRYQVVFGHRRLRAARELGRNVRAVVKAIDDRTHVIAQGQENSARADLTFIERALFAKRLEELGYDRE--VISTALAANAASVSKMMSVMERLSREVVQAIGSAPGVGRERWVELSLLA-GKAANAANVAKVLEGDNFHQLPSDK-RFEALYAALNK 'Rhizobium leguminosarum bv. viciae 3841 pRL10 YP_770305' VLEIDPAAVEMSFIRDRIPVDKDAEF-ERLKQSIQESGQQVPILVRPDPVRAGHYQAAYGHRRLRAAAEIGVPVKAVVRKLTDEELILAQGQENGPRVDLSFIERALFARRMDEYGFSRD--MIAKALATDKPETSRLLQVAQTIDPEIILAIGPAPKVGRPRWLAFAEKF-RETSGQKKAQAAIRTAGFGTLETNS-RFDVIWKAVEE 'Rhizobium leguminosarum bv. viciae 3841 pRL8 YP_770903' LSELDPELIDAPSVTDRLD-EDGAQF-EEFARNIRENGQQVPILVRPHPTVEGRYQIAYGRRRLRAVKAAGLKVKAAIRNLTDDELVLAQGQENSARQDLSFIERALYAAQLEASGYQRP--VIMAALAVDKSNLSRLIQAATQLPDDVIRLIGAAPKTGRDRWYELSSRL-AAEGAAEKARALLSTSEVGSLGSDE-RFVRVFDAVAP 'Rhizobium leguminosarum bv. viciae 3841 pRL12 YP_764519' IVELDPGLIDASFVSDRLA-IDAAEL-AQLVEQIREHGQQVPILVRPHPETRGRYQVAYGHRRLAATREIGIRVRAVVRDLTDGQLVVSQGQENSARTNLSYIERALFASRLEERSFGRD--VIMAALGVDKAALSRMLIVIRQVPLDLVNAIGAAPDIGRRRWLELGERL--EKADVEKIVAELSADDARKISSDE-RFQRAL-VLAT 'Rhizobium leguminosarum bv. viciae 3841 pRL11 YP_771035' VVELDPDLIDSSFVRDRLA-DQPLDREDELVQSIAENGQEVPILVRRHPNDEDRYQVAYGHRRLQAVKLLGLKVQAIVRKLDDTDVVIAQGIENSARRNLSYIERAVFALNLELKGFERP--VIMKALSTDKTELSKLISVAKAIPAEIVRSIGAAPGIGRRRWMALAQDW--NGMTAARLAKLIASGSFLAEESDR-RFELLVAELAR 'Rhizobium leguminosarum bv. viciae 3841 pRL7 YP_770826' IVDLDPRVIDVSFVADRLS-DDGEEY-QELKQAISESGQTTPILVRPSSSDSQRFMVVFGHRRLRVAKELGVPVKAVVKKMDDITSAIAQGQENSARSNLSFIERAYFAQNLLASGMTKE--VVRSSLAIDDAMLSKMLGVVETVPASILKVLGASKKIGRDRWLSLRQLL-LAPALLKVAIERAAAVEFVALAEDK-RFDELHDYLKR 'Rhizobium leguminosarum bv. viciae 3841 pRL9 YP_765300' VIELDPDLVDASFVRDRIE-EDEQEF-NELLSAIRERGQDSPILVRPHPKDSERYMVVFGHRRLRAARALGRNVRAVVKDLKDSDHLVAQGQENSARANLSFFEKAMFASEIARLHFDGDNAIILSALSVDRATLSKMLAVA-SMPRELLDAVGAAKGIGRDRWYELKTLL-ERPSNLERARAFLGTEEFNTKTGDD-RFNVLLTHIKA 'Rhizobium tropici CIAT 899 pRtrCIAT899a YP_007335860' VVELDPSSIEPSFVQDRM----QGDI-DGLLMSIREQGQQVPILVRPHPEGGGRYQVAFGHRRLRAVSELGLPVKAVVRDLTDEQLVVAQGQENNEREDLTFIEKARFAHQLNKQ-FSRE--IVIAAMSIDKSNLSKMLLLIDALPSELIDAIGAAPGVGRPSWQQLAELV-EKAGSPADVVKFASSAEAQTLPSAD-RFKAVIGHLKP 'Rhizobium tropici CIAT 899 pRtrCIAT899b YP_007336360' IIELDPAQIEGSFVKDRIS-DDDGEY-QDLLEAIRVRGQDTPILVRPHTKVDGLYQVVFGHRRVRAARDLGRKVRAIVKAIDDRSHVIAQGQENSARANLSFIERALFAKRLDDLGYGRE--VISLALSANAASVSKMMTVAERISANVIEKIGSAPGVGRERWIELSLLV-GKFANSGKVSEVLSTDGFDALPSDE-RFSSLYKALNR 'Rhizobium tropici CIAT 899 pRtrCIAT899c YP_007338265' IQDLDPQVIDASPYPDRLPDDDPQDF-ERFKRSIEEEGQKVPIQVRRHPSSGDRYQVVYGHRRWRAALELGRTVRAIEVEISDLDLVLAQGIENASRQDLTWIERALFASRMDDAGIKAR--HIYAALSIEDAELARMRSVYRAIPADIIEAIGRAPKIGRPRWLDLAKAISAAPNALDVVRAALLDANKDNETSDQ-RFQVALKAIKP 'Sinorhizobium fredii HH103 pSfrHH103c YP_005191303' VVELDPATIDASFVADRMG-DDTEAF-EELVEAIRQRGQDSAILVRPHPNLEGRYMTVFGHRRVRAAGVLGRPVKAVVKELDNKNHVIAQGQENSARADLSFIEKAVFASNLERSGYDRE--VIMASLSVDKTVVSKMISVTNDIPEDVIRAIGPAKSSGRDRWYRLALKF-RDGGAEGRVGELTGSPEFQSADSDQ-RLELLTRHLDT 'Sinorhizobium fredii GR64 pSfrGR64a YP_004716838' VVELDPSSIEPSFVQDRM----QGDI-DGLLMSIREQGQQVPILVRPHPEGGGRYQVAFGHRRLRAVSELGLPVKAVVRDLTDEQLVVAQGQENNEREDLTFIEKARFAHQLNKQ-FSRE--IVIAAMSIDKSNLSKMLLLIDALPSELIDAIGAAPGVGRPSWQQLAELV-EKAGSPADVVKFASSAEAQTLPSAD-RFKAVIGHLKP 'Sinorhizobium meliloti 1021 pSymA NP_436539' IVEIDPDEIMESAIRDRFDSGYSEAGIADLLESMREHGQSTPGLVRPVRGAARPFQIVFGRRRLAAAKLLGIKFKAIARELSDEDAIVLQGEENSNRKDLSFIERCLFAQSQEAAGYRRD--VICKSLSTGRSHISEMIRIAAALPREILMQIGPAPEIGRRRWIEFEVRWAAHREPAKVAQLVLEQEQIQASSSDL-RFTAVFEALTK ; END; BEGIN TREES; Title RepB_Althabegoiti_2013; LINK Taxa = Taxa; TRANSLATE 1 'Rhizobium grahamii CCGE 502 pRgrCCGE502_Ch EPE96923', 2 Rhizobium_grahamii_CCGE_502_pRgrCCGE502b_EPE94573, 3 Rhizobium_grahamii_CCGE_502_pRgrCCGE502b_EPE94986, 4 Rhizobium_grahamii_CCGE_502_pRgrCCGE502a_EPE93859, 5 'Rhizobium mesoamericanum pRmeSTM3625_2 WP_007539588', 6 'Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537658', 7 'Rhizobium mesoamericanum pRmeSTM3625_3 WP_007538604', 8 'Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537813', 9 Rhizobium_mesoamericanum_pRmeCCGE501d_KF866302, 10 Rhizobium_mesoamericanum_pRmeCCGE501c_KF866303, 11 Rhizobium_mesoamericanum_pRmeCCGE501_KF866304, 12 Rhizobium_mesoamericanum_pRmeCCGE501d_KF866301, 13 Rhizobium_mesoamericanum_pRmeCCGE501_KF866305, 14 'Rhizobium etli CFN 42 pRetCFN42a YP_471770', 15 'Rhizobium etli CFN 42 pRetCFN42f YP_472831', 16 'Rhizobium etli CFN 42 pRetCFN42e YP_472620', 17 'Rhizobium etli CFN 42 pRetCFN42c YP_472165', 18 'Rhizobium etli CFN 42 pRetCFN42b YP_471933', 19 'Rhizobium etli CFN 42 pRetCFN42d NP_660041', 20 'Rhizobium etli CFN 42 pRetCFN42f YP_473187', 21 'Rhizobium leguminosarum bv. viciae 3841 pRL10 YP_770305', 22 'Rhizobium leguminosarum bv. viciae 3841 pRL8 YP_770903', 23 'Rhizobium leguminosarum bv. viciae 3841 pRL12 YP_764519', 24 'Rhizobium leguminosarum bv. viciae 3841 pRL11 YP_771035', 25 'Rhizobium leguminosarum bv. viciae 3841 pRL7 YP_770826', 26 'Rhizobium leguminosarum bv. viciae 3841 pRL9 YP_765300', 27 'Rhizobium tropici CIAT 899 pRtrCIAT899a YP_007335860', 28 'Rhizobium tropici CIAT 899 pRtrCIAT899b YP_007336360', 29 'Rhizobium tropici CIAT 899 pRtrCIAT899c YP_007338265', 30 'Sinorhizobium fredii HH103 pSfrHH103c YP_005191303', 31 'Sinorhizobium fredii GR64 pSfrGR64a YP_004716838', 32 'Sinorhizobium meliloti 1021 pSymA NP_436539'; TREE Imported_tree_0 = ((((16:0.07195536,24:0.03859849)0.526000:0.08572636,(3:0.12310521,(6:0.03304241,9:0.01513844)0.977000:0.09391686)0.916000:0.13183551)1.000000:0.67325795,((20:0.18973174,28:0.23401191)0.999000:0.42809904,((18:0.37735208,30:0.43682468)0.786000:0.17879165,(26:0.47100177,(1:0.43758578,(7:0.07453666,25:0.16907416)1.000000:0.56513544)0.983000:0.28900517)0.462000:0.06435381)0.763000:0.06491619)0.966000:0.20648171)0.680000:0.069044395,((19:0.11792484,(27:2.4E-7,31:1.2E-7)0.678000:0.03065847)1.000000:0.64672275,((15:0.03592463,23:0.07874577)0.999000:0.53044593,(((13:0.24900125,29:0.11882279):0.98213604,(17:0.0386987,21:0.05912099)1.000000:0.73863301)1.000000:0.08342053,((14:0.07978968,(10:6.0E-8,(4:0.02108841,5:1.3E-7)0.762000:0.00503722)0.000000:2.3415E-4)1.000000:0.97704622,((11:0.4014984,22:0.24086781)0.970000:0.255792,(32:0.43828087,(2:0.1032796,(8:0.02450352,12:0.02554121)0.517000:0.08228206)0.944000:0.32046389)1.000000:0.90028083)0.599000:0.06723372)0.580000:0.10179299)0.433000:0.07022021)0.765000:0.09885854)0.240000:0.069044395); END;