#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 23, 2024; 17:04 GMT TreeBASE (cc) 1994-2008 Study reference: Harshman J., Huddleston C., Bollback J., Parsons T., & Braun M. 2003. True and False Gavials: A Nuclear Gene Phylogeny of Crocodylia. Systematic Biology, 52(3): 386-402. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S994] BEGIN TAXA; TITLE Taxa1; DIMENSIONS NTAX=14; TAXLABELS Alligator_mississippiensis Anseranas_semipalmata Caiman_yacare Casuarius_casuarius Coragyps_atratus Crocodylus_cataphractus Gavialis_gangeticus Melanosuchus_niger Musophaga_violacea Ortalis_cinereiceps Osteolaemus_tetraspis Paleosuchus_palpebrosus Struthio_camelus Tomistoma_schlegelii ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M544] TITLE 'crocodylian c-myc sequences'; LINK TAXA = Taxa1; DIMENSIONS NCHAR=1191; FORMAT DATATYPE=DNA SYMBOLS= "0 1 2 T" MISSING=? 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 1010 1020 1030 1040 1050 1060 1070 1080 1090 1100 1110 1120 1130 1140 1150 1160 1170 1180 1190 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Alligator_mississippiensis 210210T--2222202201------0220202T21T0T1110T1T21T2T102102T1001TT111T21T1T1T122102TT02210020T1T1T001----T1TT--20T1T2222T210222TTT02111T2000220221220T2TT1002110T22210220210T11T2TT21-----------------------------010TT-220T21T220TTT1T222022000T022TTTTT2222002T21022TTTT020021T20TT010010T2TTT0000TT102TTT21121T2TT1TT11002111-0200T2022T11T2TTTT200011120T21TTTTTT000T1T01002TT001T2TTTT--0TTTT11TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1102101020TT110T02012201010210021101011010211121T02TT1T1002122T2T10T2T11110T110110210100TT0121T21T11T11TT110110022TT200T0T112T10210002022TT0000TT220100T2210200TT1T10001020T102T001001020002T21T1002T111121010T10201T122002020012010020221200101010012T1TT22021211000220200012021T2002TT2021TT1TTT21TTT21212012020T011T2022T021100100T2000022101110002T12T10T11TT000002210012200T0T2TT0TTT1T0TT10001020T2001010201T20TT210202000202102TT202202212212020T100TT200010T0001TT2021021T0022001T1TT2T210T020001T1TT222T0T0201TT202T00111000110201T2000-T0T20T0000--T0TT00T2TTT1T00T1TT01T10T2001T0T011-02TT11---200-0-22021T1TT2100TT210T21T2T210000T201TT21001T01010011TT221TT10T1T1T10T2021T202110T0011T100--11001111002 Anseranas_semipalmata ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????200200200---10020220020T---2022000TT20T2T12TT010TT021T200210001200T11200T11021012202T11021010200------------------010---T10---20020210102T0021111011010211121T22TT1T1000122T2T10T2T10010T110T10210100TT0121121T11T111T110110022TT200T0111021T2100000021T0002TT22?102TTT11????????????????102110T001120?T0T21T1002T111121012T10201T122022020012010020221200121010012T1TT22021211020220200012021T20021T202TTT1TTT211TT212T2011020T011?2022T22110010012000022101110022T12T10T11T2000000210010202T012TT1T1T110T1102T122012001010201T20T1210202000202102TT2022122022020200102TT20001010001TT2021021T0022001T1T12T210T022001T1TT22210T121TT0200T001110001T0201T20001T0120T0000--T0TT00T2TTT1T00T0T101T10T2001T01011-02T-110T1202T0T22001T0TT21002T210T21T2T2120TTT001TT20201T01010011TT221T20011T11000122?TT2211020011T100001???????002 Caiman_yacare 210210T--2222202201------2220202T21T2T1010T1T21T2T102102T1001TT111T21T1T1T102102TT02210020T1T1T001----T1TT--20T1T2222T210222TTT02111T2000220221020T2TT1002110T22210220210T11T2TT21-----------------------------010TT-220T21T120TTT1T222022000T02-TTTTT2222002T21022TTTT020021120TT010010T2TTT0200TT102TTT21121T2TT1TT1100211110200T2022T11T2TTTT200011122T21TTTTTT000T1T01002TT001T2TTTT--1TTTT11TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1102101020TT110T02012201010210021101011010211121T02TT1T100212TT2T1012T11110T110T10210100TT0121T21T11T11TT110110022TT200T0T110T10210002022TT0000TT220100T2210200TT1T10001020T102T001001020002T21T1002T111121010T10201T1220020200120100202212001210100T2T11T2202121100022020001202TT2002TT2021TT1TTT21TTT212T2012020T01112022T021100100T2000022101110002T12T10T11TT000002210012200T0T2TT0TTT1T0TT10001020T2001010201T20TT210202000202102TT202202012212020T100TT200010T0001TT202102TT0022001T1TT2T210T020001T1TT222T0T2201TT202T00111000110201---00-T2T22T0000-TT0TT00T2TTT1T00TTTT01T10T2001T0T211-00TT1T---200-0-2202TT1TT2100TT210T21T2T210000T201TT21001T01010011TT221T110T1T1T10T2021T202110T0011T100--11001101101 Casuarius_casuarius ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????200200200---100202200201---2002000TT20T2TT2TT0111T021T20021200T200T11200T11021010202T11021010200------------------010---T10---20022210102T0021111011010211121T02TT1T1000122T2T1012T10010T110T10210100TT0T21T21T11T111T110110022TT201T0T11021T2100000221T0002TT220102T2210202TT1T10001020T102T00T001121000T21T1002T111121012T10201T1220220200120T0020221200121010012T1TT22021211020220200012021T20021T202TTT1TT1211TT212T20T1020T01122022T22110010012020022101110022TT2T10T11T2000000210012200T0T2TT1TTT1T0T1102T102012001010201T20TT210202000202102TT2022022122022200102TT20001010001TT2021021T0022001T1TT2T212T022001T1TT22-10T10TTT0200T001110001T0201T20001T0T20T0000--T0TT00T2TTT1T00T0T101T10T2001T01011102T-110T000220T2200100TT2100TT210T21T2T2120TTT001TT20201T01010011TT221T020T1T11200T22TTT0211????????????????????002 Coragyps_atratus ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????200200200---10020220020T---2022000TT20T2TT2TT010TT021T20021200T200T11200T11021010202T11021010201------------------010---T10---20020210102T0021111011010211121T22T11T1000122T2T1012T100T0T110T10210100TT0T21121T11T111T110110022TT200T0111021T2100000221T0002TT220102T2210202TT1T10001020T1021001001120000T21T1202T111121012T1020TT1220020200120100202212001210100T2T1TT22021211020220200012021T20021T202TTT1TTT211TT212T2011020T01112022T221100100T2000022121110022TT2T10T11T2000000210012202T012TT1TTT110T1102T122012001010201T20T1210202000202102TT2022122022020200102TT20001010001T12021021T0022001T1TT2T210T022021T1TT22210T121TT0200T001110001T0201T20001T0T20T0000--T0TT00T2TTT1T00T0T101T10T2001T01011-02T-110T1202T0T22001T0TT21001T210T21T2T2120TTT001TT20201T01010011TT221T200T1T11100222TTT2211020011T100001???????002 Crocodylus_cataphractus 210210T--22222222212201012220222T21T2T1010T1T---2T102102T1201TT111T21T1T1T222101TT02210020T1T1T0012020T1002020T1T222212102221TT02111T2022220221220T2TT1002112T22210220210T11T2TT21-----------------------------0T21T-220T21T020TTT1T222022000T02-TTTTT2222002T21022TTTTT20021100TT010010T2TTT0000TT102TTT21121T2TT1TT11002111-0200T0022T11T2TTTT200011122221TT1TTT000T1T01000TT001T2TTTTTT1TTTTT1TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1T02101020TT110102012201010210021101011010211121T02TT1T1002122T2T10T2T11110T110T10210100TT0121T21T11T11TT110110022TT200T0T112T10210002022TT0000TT220100T2210220TT1T10021020T102T001001020002T21T1002T111121010T10201T122002000012010020221200121010012T11T22021211000220200012021T2002TT2021TT1TTT21TTT212T2012020T01112022T021100100T2000022121110002T12T10T11TT000000210012200T0T2TT0TTT1T0TT10021020T2021010201T20T02102020002021021T202202212212020T100TT20001010001TT2021021T0022001T1TT2T210T020001T1TT222T0T0201TT202T00111000110221T2000-T0T20T000000T0TT00T2TTT1T00T1TT01T10T2011T01011-22TT11---000-0-22021T1TT2100TT210T21T2T212200T201TT21001T01010011TT221TTT2T1T1T1--2021T202110T0011T100--10100010010 Gavialis_gangeticus 2102100222222222001------2220222T21T2T1010T1T21T2T102102T1201TT111T21T1T1TT-2101TT122T0020T1T1T0010022T1002020T1T2222T2102221T102111T2022220221220T2TT1202212T22210220210T11T2TT21-----------------------------0101T-220T21T220TTT2T222022000T02-TTTTT2222002T21022TTTT020021100TT010010T2TTT0200TT102TTT21121T2TT1TT11202111-0200T0022T11T2TTTT200011122T21TT1TTT000T1T01000TT001T2TTTT--0TTTTT1TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T22021T200T11221010202T1T02T010201T1T021220202T1T02101020TT110102012201010210021101011010211121T02TT1T1002122T2T10T2T111T0T110T10210100TT0121T21T11T11TT110110022TT200T0T112T10210002022TT0000TT220100T2210220TT1T10021020T102T001001020002T21T1202T111121010T10201T122002000012010020221200101010012T11T22021211000220200012021T2002TT2021TT1TTT21TTT212T2012020T01112022T021100100T2000022101110002T12T10T11TT000000210012200T012TT0TTT1T0TT10021020T2021010201T20T02102020002021021T202202212212020T100TT200010T0001TT2021021T0022001T1TT2T210T020001T1T2222T0T0201TT201T00111000110221T2000-T0120T000000T0TT00T2TT-1T00T1TT01T10T2001T01011-22TT11---200-0-22021T1TT2100TT210T21T2T212200T201TT21001T01010011TT221TT10T1T1T1002021T202110T0011T100--11010011000 Melanosuchus_niger 210210T--2222202201------2220202T21T2T1010T1T21T2T102102T1001TT111T21T1T1T102102TT02210020T1T1T001----T1TT--20T1T2222T210222TTT02111T2000220221020T2T-----------------------------210010220T21T11T21110T221TT20010TTT220T21T120TTT1T222022000T02-TTTTT2222002T21022TTTT020021120TT010010T2T1T0200TT102TTT21121T2TT1TT1100211110200T2022T11T2TTTT200011122121TTTTTT000T1T01002TT001T2TTTT--1TTTT11TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1102101020TT110T02012201010210021101011010211121T02TT1T100212TT2T1012T11110T110T10210100TT0121T21T11T11TT110110022TT200T0T110T10210002022TT0000TT220100T2210200TT1T10001020T102T001001020002T21T1002T111121010T10201T1220020200120100202212001210100T2T11T2202121100022020001202TT2002TT2021TT1TTT21TTT212T2012020T011T2022T021100100T2000022101110002T12T10T11TT000002210012200T0T2TT0TTT1T0TT10001020T2001010201T20TT210202000202102TT202202012212020T100TT200010T0001TT202102TT0022001T1TT2T210T020001T1TT222T0T2201TT202T00111000110201---00-T2T22T0000--T0TT00T2TTT1T00T1TT01T10T2001T0T211-00TT1T---200-0-2202TT1TT2100TT210T21T2T210000T201TT21001T01010011TT221T110T1T1T10T2021T202110T0011T100--11001101102 Musophaga_violacea ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????200200200---10020220020T---2022000TT20T2T12TT010TT021T200212001200T11200T11021010202T11021010202------------------010---T10---20020210102T0021111011010211121T22TT1T1000122T2T1012T10010T110T10210100TT0T21121T11T11TT110110022TT200T0111221T2100000021T0002TT220102T2210202TT1T10001020T102100T001120000T21T1002T111121010T1020TT102002020012010020221200121010012T1TT220212110202202000T2021T1002TT202TTT1TT121TTT212T2011020T01112022T22110010012000022121110022TT2T10T11T2000000210012202T0T2TT1TTT110T1102T122012001010201T20T1210202000202102TT2022122022020200102TT20001010001T12021021T0022001T1TT2T210T022021T1TT22210T111TT0200T001110001T0201T20001T0T---2000--T0TT00T2TTT1T00T0T101T10T2001T01011-02T-110TT202T0T22001T0TT21001T210T21T2T2120TTT001TT20201T01010011TT221T200T1T11100222TT12211020011T100001???????002 Ortalis_cinereiceps ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????200200200---10020220020T---2022000TT2012T12TT010TT221T200210001202T11200T11021010201T11021010202------------------210---T10---20220210102T0021111011010211121T22T11T1000122T2T1012T10010T110110210100TT0T21121T11T111T110110022T2200T011102112110020221T0002TT220102T2210222T11T10001020T1021001001120000T21T1202T111121012T10201T102022020012010020221200121010012T1TT220212110212002200T2021T2002TT202TTT1TTT2111T21212011020T011T2022T22110010012020022121110022TT2T10T11T2000000211010202T012TT1T2T110T1102T122012021010201T20T1210202000202102TT2022122022020200102TT20001010001TT2021021T0022001T1T12T210T022001T1TT22210T121TT0200T011110001T0201T20201T0T20T0000--T0TT02T2TTT1T00T02101T10T2001T01011102T-110T1202T0T22001T0TT21001T210T21T2T21201T1001TT20201T01010011TT221T200T1T11000122TTT2211020011T100001???????002 Osteolaemus_tetraspis 210210T--2222222221{02}201012220222T21T2T1010T1T---2T102102T1201TT111T21T1T1T222101TT02210020T1T1T0012020T1002020T1T222212102221TT02111T2022220221220T2TT1002112T22210220210T11T2TT21-----------------------------0T21T-220T21T020TTT1T222022000T02-TTTTT2222002T21022TTTTT20021100TT010010T2TTT0000TT102TTT21121T2TT1TT11002111-0200T0022T11T2TTTT200011122221TT1TTT000T1T01000TT001T2TTTTTT1TTTTT1TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1T02101020TT110102012201010210021101011010211121T02TT1T1002122T2T10T2T11110T110T10210100TT0121T21T11T11TT110110022TT200T0T112T10210002022TT0000TT220100T2210220TT1T10021020T102T001001020002T21T1002T111121010T10201T122002000012010020221200121010012T11T22021211000220200012021T2002TT2021TT1TTT21TTT212T2012020T01112022T021100100T2000022121110002T12T10T11TT000000210012200T0T2TT0TTT1T0TT10021020T2021010201T20T02102020002021021T202212212212020T100TT20001010001TT2021021T0022001T1TT2T210T020001T1TT222T0T0201TT202T00111000110221T2000-T0T20T000000T0TT00T2TTT1T00T1TT01T10T2011T01011-22TT11---000-0-22021T1TT2100TT210T21T2T212200T201TT21001T01010011TT221TTT2T1T1T1--2021T202110T0011T100--10100010010 Paleosuchus_palpebrosus 210210T--2222202201------2220202T21T2T1010T1T21T2T102102T1001TT111T21T1T1T102102TT02210020T1T1T001----T11T--20T1T2222T210222TTT02111T2000220221020T2TT2002110T22210220210T11T2TT21-----------------------------010TT-220T21TT20TTT1T222022000T02-TTTTT2222002T21022TTTT020021120TT010010T2TTT0200TT102TTT21121T2TT1TT11000111-0200T2022T11T2TTTT200011122T21TTTTTT000T1T01002TT001T2TTTT--1TTTT11TT21020020020020010020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1102101020TT110T02012201010210021101011010211121T02TT1T100212TT2T10T2T11110T110T10210100TT0121T21T11T11TT110110022TT200T0T110T10210002022TT0000TT220100T2210200TT1T10001020T102T001001020002T21T1002T111121010T10201T122002020012010020221200121010012T11T22021211000220200012021T2002TT2021TT1TTT21TTT212T2012020T01112022T221102100T2000022101110002T12T10T11TT000002210010200T0T2TT0TTT1T0TT10001020T2001010201T20TT210202000202102TT202202012212020T100TT200010T0001TT202102TT0022001T1TT2T210T020001T1TT222T0T2201TT202T00111000110201T2000-T0T20T0000--T0TT00T2TTT1T00T1TT01T10T2001T0T211-00TT1T---200-0-2202TT1TT2100TT210T21T2T210000T201TT21001T01010011TT221T110T1T1T10T2021T202110T0011T100--11001111002 Struthio_camelus ??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????202200200---100202200201---2002000TT20T2TT2TT0101T021T20021000T200T11200T11021010202T11021010200------------------010---T10---20022210102T0021111011010211121T02TT1T1000122T2T1012T10010T110T10210100TT0T21T21T11T111T110110022TT202T0T11021T2100000221T0002TT220102T2210202TT1T10001020T102T00T001121000T21T1202T111121010T10201T1120020200120T00202212001210100T2T11T220212110202202000T2021T20021T202TTT1TT1211TT212120T1020T01122022T22110010012000022101110022TT2T10T11T2000000212012200T0T2TT1TTT1T0T1102T1020T2001010201T20TT210202000202102TT2022022022022200102TT20001010001TT2021021T0022001T1TT2T212T022001T1TT22210T10TTT0200T001T10001T0201T20001T0T20T0000--T0TT00T2TTT1T00T0T101T10T2001T01011102T-110T000220T22001T0TT21001T210T21T2T2120TTT001TT20201T01010011TT221T020T1T11200222TTT0211????????????????????002 Tomistoma_schlegelii 2102100-22222222201------2220222T21T2T1010T1T21T2T102102T1201TT111T21T1T1TT-2101TT022T0020T1T1T0012020T1002020T1T2222T2102-0T1T---11T2022220221220T2TT1002212T22210220210T11T2TT21-----------------------------0101T-220T21T220TTT1T222022000T02-TTTTT2222002T21022TTTT020021120TT010010T2TTT0000TT102TTT21121T2TT1TT11202111-0200T0022T11T2TTTT200011122T21TT1TTT000T1T01000TT001T2TTTT--0TTTTT1TT210200200200---10020220020T2022022000TT20T2T22T10121T02T02022T200T2202TT200T11221010202T1T02T010201T1T021220202T1T02101020TT110102012201010210021101011010211121T02TT1T1002122T2T10T2T11110T110T10210100TT0121T21T11T11TT110110022TT200T0T112T10210002022TT0000TT220100T2210220TT1T10021020T102T001001020002T21T1202T111121010T10201T122002000012010020221200101010012T11T22021211000220200012021T2002TT2021TT1TTT21T1T212T2012020T01112022T021100100T2000022101110002T12T10T11TT000000210012200T0T2TT0TTT1T0TT10021020T2021010201T20T02102020002021021T202202212212020T100TT200010T0001TT2021021T0022001T1TT2T210T020001T1TT222T0T0201TT201T00111000110221T2000-T0120T000000T0TT00T2TTT1T00T1TT01T10T2001T01011-22TT11---200-0-22021T1TT2100TT210T21T2T212200T201TT21001T01010011TT221TT10T1T1T1202021T202110T0011T100--11010011000 ; END; BEGIN TREES; TITLE Tb6484; LINK TAXA = Taxa1; TRANSLATE 1 Musophaga_violacea, 2 Anseranas_semipalmata, 3 Coragyps_atratus, 4 Ortalis_cinereiceps, 5 Struthio_camelus, 6 Casuarius_casuarius, 7 Alligator_mississippiensis, 8 Paleosuchus_palpebrosus, 9 Melanosuchus_niger, 10 Caiman_yacare, 11 Gavialis_gangeticus, 12 Tomistoma_schlegelii, 13 Osteolaemus_tetraspis, 14 Crocodylus_cataphractus; TREE Fig._2 = [&R] ((((14,13)Crocodylidae,(12,11)Gavialidae)Longirostres,(((10,9),8),7)Alligatoridae)Crocodylia,((6,5)Paleognathae,((4,2)Galloanserae,(3,1)Neoaves)Neognathae)Aves)Archosauria; END;