#NEXUS BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=71; TAXLABELS Acanthostega Proterogyrinus Balanerpeton Dendrerpeton Tuditanus Asaphestera Hapsidopareion Saxonerpeton Pantylus Cardiocephalus_sternbergi Cardiocephalus_peabodyi Euryodus_primus Euryodus_dalyae Pelodosotis Micraroter Rhynchonkos Microbrachis Batropetes Utaherpeton Stegotretus Sauropleura_scalaris Ptyonius Urocordylus Keraterpeton_galvani Batrachiderpeton Diceratosaurus Diplocaulus_magnicornis Diploceraspis Scincosaurus Brachydectes Adelogyrinus Oestocephalus Phlegethontia Greererpeton Seymouria_baylorensis Limnoscelis Branchiosauridae Micromelerpetontidae Tersomius Ecolsonia Acheloma Eryops Doleserpeton Salamanders frogs Albanerpetontidae Micropholis Eoscopus Tambachia Triadobatrachus Karaurus Gerobatrachus Platyrhinops Amphibamus Rhinatrematidae Ichthyophiidae Scolecomorphidae Herpelidae Caeciliidae Typhlonectidae Dermophidae Siphonopidae Indotyphlidae Eocaecilia Chinlestegophis Rileymillerus Huskerpeton Nannaroter Tambaroter Carrolla Pariotichus ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=319; FORMAT DATATYPE = STANDARD RESPECTCASE GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5 6 7"; MATRIX Acanthostega 000100000100000?000000000010000000000000000000000100000000010--000000000000000-0000--00000000000000000000000000000000000000000000000-010000000000?0000000000000000?000000000000000000000000000000000000000000000000010000000000000000?0-00?00-?-0?1??????00???0?000????????????????????????????---?-??-??---?????-???--?--??000 Proterogyrinus 01000000?00?001?00010000000?000000000000000000000001000000010--000000000010000-0020000000000????000?1000000?0??000000000000000000?00-00?001000000?00000000200001?0100000000000000?000000000010000000200100?1010010111000100????00100??0-00?00-0-0?1??????00???0?000????????1-?????????????-?-??-???-??-??---???00-???--??-??000 Balanerpeton 000000001011001000000000?101000000000000000000011000000000000--100000000000000-0000?000000000000000000000000100000110001000000100000-0001-1010001?000000000000000?00000000?000020010000000000000000??0022001100110211000100????000000?0-00?00-0-0?1??????00??10?000????????1-??????????????????---?-??-00---???00-???--??-???00 Dendrerpeton 000000000011001000000000?110000000000000000000010000000000000--100000000000000-000000?000000000000000000000010000?110000000000001110-00???1010001?00000000000001??10000000?00?0?00100000000000000000100220011001002?00?0??0000?000000?0-00000-0-0?1??????00???0?000????????1-??????????????????---?-??-00---???00-???--?0-?0000 Tuditanus 31011-110111001100010000?0000000000001--000100000001?000?00-0--110000?00011000-011??0?10??00?200000000?0000200000?000000??01001002-0-21???0010000?012-001021----??1000112202011010001021111-?100001--2022001000110001000010????000100?0-00000-0-0?1??????00??10?000????????1-??????????????????--??-??-00---???00-???--??-??0-0 Asaphestera 22011-110111001000010000?00100000300010-0001000010010000000-0--?10000001010000-01210002001000???01000?0??00????001010000?000?0100????20????110000??12?00102???????10001122??011??000???1110-?0????102002100?1???200?10?????????0001?0??-00100-0-0?1??????00???0?000????????1-??????????????????--?????-00---???00-???--??-???-? Hapsidopareion 3?011-010101001001--0000?0001000010001--0000000010010000110-0--120001000011000-01011002001001-0000011010000101010?0100000000110112-0-20???110000????0??0?02????????00011212001?01??0????????????????????????00??202?????????0??0101?0??-00000-0-0?1??????00??10?000????????1-??????????????????--?????-??---?????-???--??-???-? Saxonerpeton 31011-110101001000010100?0011000010001--0001000000010000100-0--020001000011000-0110?0?201-001-00000000-?000??????10100000000110?1??1020????1100001011-001021----??10001121?2011001000?21111-1110001??0020002100110201000100????0001?0?0-00?00-0-0?1??????00?????0?0????????1???????????????????--?????-00---???00-???--??-???-? Pantylus 10011-11011100100001000000000101011001--0000000000010110000-0--101000000222010-010100011020002000000011100010011?00000001000100011?10202010000001?01101010200000011000012202011101000?01111-1010002010022002100110211000110??0?100000?0-10000-0-0?1??????00??11?000????????1-????????????0-0-?0--0?-?0-00---?2000-??0-0?0-?00-0 Cardiocephalus_sternbergi 3?011-110111001110010000?0000101021001--0001000000010?10000-0--12110001022211??1100000300100010011011121000100010000000000001?0012-0-20202111000?????????0?????????????????????????????????????????????????????????????????11?-101000?0-10000-0-0?1??????00??10?001????????1-????????????0-0-?0--0?-?0-00---???0?-??0-0??-?00-0 Cardiocephalus_peabodyi 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Pelodosotis 13011-110111001100110000?0001000031001--0000000000010110010-0--12101-010012010-01210002?0100????000??0210001021100010000?000?0111111020?021100002??01?10102???????10001121?10110010010?0111-11100011-10220021???00201000?????12111000?0-20?00-0-0?1??????00???0?0?0????????1-????????????0-0-?0--00-?--00---???00-???--??-??0-0 Micraroter 13011-110111001010110000?0000000030001--00010000100101?0010-0--121100010112010-0101001200100020000000020000001010?000000000010101??1020???1100000?00101010200001001000012200011000002?????????1000?0-1???0??????102110?????????111000??-20000-0-0?1??????00??10?000????????1-????????????0-0-?0--0?-?--00---???00-??0-0?0-??0-0 Rhynchonkos 33011-110111001000010000?0000102121001--0001000010010010000-0--121000010012000-0101101310100010010011011000000011001000?0000100001110101011110002??02?00102???????10000122-2011210001?3??????????0????12201210011020100010???0?101100?0-20000-0-0?1??????00??10?000????????1-????????????0-0-?0--0--?--01---?0000-??0-0?0-??0-0 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Diceratosaurus ?1011-000111001010010000?0012000000011--00000000011100100000100010100?00????00-010?11?2???0???????0??????01?????00001?????000?11011102?2011000013?01200101201000001010101222111210000030-000?010012--210001011?12021111?--0????-00000??-00?00-?-???????????????????????????????????????????????--??-??-??---?????-???--??-????? Diplocaulus_magnicornis 01011-000111000-1001110100011100000011--00000010011100100000111010000100012000-010011?300100010010011110001?????001110101010020010?0-202010000013?01200101201000001011111222112200100130000010???12??200001101?120??111?--0????-00000?0-00?00-?-???????????????????????????????????????????????--??-??-00---???00-???--??-??1-0 Diploceraspis 0?111-00011-1---0001110100012000000001--00000010011100100000111010000100012000-01001103001001?0010011110001?????00111010001010110111020201000002??012001012010100?10111122221122???0?1?0-00010???12????????????????????????????-00000?0-00?00-?-???????????????????????????????????????????????--??-??-??---?????-???--??-??1-0 Scincosaurus 33011-110111001000010000?00120000?0011--00000000000120---0000--010100000012000-01??11?301-001?00100101-0001?????00010000100?0???????????01?000011?01210001201111001000101222?11210000?20-000?000002??0022001000010201000?10?????00000?0-00?00-?-???????????????????????????????????????????????--??-??-??---?????-???--??-???-0 Brachydectes 33011----1110011-1--000000012000-20001--00001---0-1101110-000--120100000012000-012100031110001001001111100?10100100100001001100111110203--1100002?011000102000010100101021200112100000311000100000010011001?11?12021110??00?00?110000?0-00?01-0-0?1??????00??11?000????????????????????????????--??-??-00---???00-???--??-??1-0 Adelogyrinus 2?011-10021-1----0000000?00110000300000-00000010?111000000?10--0101???000?0000-01000012?1-0?1???0?0001-0000??????00??0?0000000?00??100????100000??010?00102????????0001020220112??00???0-00000???0???2????????-????????????????1000?0?0-0??00-0-0?1??????00?????0??????????????????????????????--??-??-00---???00-???--??-???00 Oestocephalus 230100-0010100101011000000012101020001--00001---0-00001001000--120100100010000-01200000001--????100?101?0-0????000000000100000001110-003--1110012?012-000021----00111010122200121-01--0---------00-------------------------????10??10?0-00?00-0-0?1??????00??10?00?????????????????????????????---?-??-??---?????-???--??-????? Phlegethontia 23011---0-1-1-------110000012000021001---0001---1---21---01-0--120101-00022000-012000-2???--????100??1?0--020000000?0-?010000??2-2-0-0?3--11100121012-000021----00111010?22200121-01--0---------00-------------------------????-0??11?0-00?00-1-0?1??????00??1??0?0??????????????????????0-0-00--00-?--00---?0-00-??0--??-10?-0 Greererpeton 02010000010001100000000000012?000300010000000000010000?000000--000000000000000-000000?000?000000000110?00000000000000000000000000100-001010010002?00000000000000??10100000?0000211100000-0100000001110011011110100201010--0????000000?0-00?00-0-0?1??????00???0?000????????1-??????????????????---?-??-00---???00-???--??-??000 Seymouria_baylorensis 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Acheloma 0?010000011100??000001001?1020100000000111100?000000001000000--100000?00011010-0000??0000010001??00???0?0?0?0?????11?00?0000?0100??0-01???00?000??00000000000000?01000??????????001???????????000????01???????0??0?????0???????0000000?-00?00-0-0?1??????00??11?001????????1-????????????0-????--??-??-00---???00-???--?0-?0000 Eryops 01010000?1?1000-000000?001??0000000100?0000000000000000000000--100000000000010-00000100000000?0??00???0?001?0????01100010000?00????0???????0?0?01?00000000000000001000??????????0000??00-000?000000??0???????0?10?1???0?000????00010000-00000-0-0?1??????00???0?000????????10????????????0-0-?0--0?-?--00---???00-???--?0-?0000 Doleserpeton 3?0100001011001000000100111?000001000020000000011000000010000--110000000000001001000110001100?0?001000??100?1???00110111110000000000-01002?010001?00??0000200?0??110000?12220??2??200?????????010?????????????0??0?????0???????00010000-00000-0-0?1??????00?????000????????00??????????????????--??-?--00---????0-??0-0?0-?0000 Salamanders 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Micropholis 20?100000?110012100000?011?0?000000000000000000?1000000001000--1-00000000??000-000001?000010001100000000?10000?0001100110100000011110010??1000003?000?00001?????011010?0002?0?1200200??0-00000010001?1120001100000201000100????001100?0-00?00-0-0?1??????00???0?000????????1-??????????????????--??-??-00---???00-???--?--??000 Eoscopus 2?0100001?11001010000110111?000000000020?21000011000000010010--110100000000000-0000???00001000000000000?0000100??111001101000000???0-?0?0200?0001000000000100001011000???0200??200200100-00000010????01110?21001?0201000100???-000100??-?????-?-???????????????????????????????????????????????---?-??-??---?????-???--?--??000 Tambachia 2?01000001110010000001001100201000000000111000000000001000000--110100000011010-0000???000010000?0001110??000?00???1100010000??1?1??0-01????01000??0???00?00??????01?0???????????00?0?????????????????011001??????0?????0???????000100?0-00000-0-0?1??????00???1?0?1????????1-??????????????????--??-??-00---???00-???--?--??000 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Platyrhinops 11010000?011001?10000010?101002020000020000000001000000010010--11110000000000100?0?01?000010000???0?????010?1????01101110100000201?0-?0????010000??02-0000100??0?110000102?2?1?200200?00-0????0100???0?1??0111010?2?1000??0????000100??-00?00-0-0?1??????00???0?000????????1-??????????????????--??-??-00---???00-???--?--??000 Amphibamus 31110000?011001010000000?10000202000002000000001100000001001???1111000000000010010?0??000110010?0010000?110010??01110111010000?????0-0??????10001??00?0000200??00110000?00?2?1?200200?00-00000010000?0??1?0100?1102?1?00??0???-0001000?-00?00-?-0?1??????00??10?000????????1-??????????????????--??-??-00---???00-???--?--??000 Rhinatrematidae 33011-----0-1----1--0000?0000102110001-----01---0-0-21----1-0--12011--000120010010011110010001001011101011000100100100102-0002-212-201-3--11000?2?012-000021----111?00111?220112?020----------------------------------------0??-0011000100001010000{0 1}{0 1}0000011{0 1}00000000000000{0 1}00000001112121010010010{0 1}1001000000000000000000211-1 Ichthyophiidae 33011-----0-1----1--000000000102110001-----01---0-0-21----1-0--12001--000120010010011110010101001011101011000100100100102-0002-212-211-3--11000?2?012-000021----111?00111?220112?020----------------------------------------0??-00110?0110000111101{0 1}{0 1}11110{2 3}10{0 1}000000000000000001000011{0 2}{0 1}{0 1}1{0 1}100{0 2}0{0 2}0{0 1}{0 1}10{0 1}{3 4}00010{0 1}0{0 1}{0 1}3{0 1}1{0 1}00{0 1}00211-1 Scolecomorphidae 33011-----0-1----1--000000010102120001-----01---0-1-21----1-0--12111--00022000-0100111100101010010111010110----0100100102-0002-212-211-3--11100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?102000112121131111113201{0 1}0000{0 1}?0100111001?02011022010{1 2}00{0 2}10{0 1}0{0 1}102{1 4}00110--00{4 6}{0 1}1----0{0 1}211-1 Herpelidae 33011-----0-1----1--00000001-102120001-----01---0-1-21----1-0--12111--0002200{0 1}-010011110010101001011101011000100100100102-0002-212-211-3--11100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?102{0 1}{0 1}11{0 1}100112001111{2 3}11{0 1}0{0 1}{0 1}00011110{0 1}{0 1}{0 1}001?1011012001111000{0 1}00{0 1}1023{1 2}00101{0 1}1{0 1}4{0 1}1000{0 1}1{0 2}211-1 Caeciliidae 33011-----0-1----1--00000001-102120001-----01---0-1-21----1-0--12111--00022000-010011110010101001011101011010100100101102-0002-212-211-3--11100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?1021111111201200111{0 1}311001101??0101001111?1001?100111110001000202310010101150001{0 1}000211-1 Typhlonectidae 33011-----0-1----1--00000001-102120001-----01---0-0-21----1-0--12111--00022000-010011110010101001011101011010100100101102-0002-212-211-3--11100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?10211111212012001110211001000110101011011?0{0 1}011{0 1}0002111000{0 1}0002023102102010{5 7}00111000211-1 Dermophidae 33011-----0-1----1--00000001-102120001-----01---0-1-21----1-0--12111--0002200{0 1}-010011110010101001011101011010100100101102-0002-212-211-3--11100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?10211111{1 2}1201200111{0 1}{2 3}11{0 1}0{0 1}11011{0 1}1{0 1}000{0 1}001?00011002{1 2}1{0 1}111{1 2}0{0 1}{0 1}0110{0 2}{1 3 4}{1 2}001{0 1}{0 1}011{0 2}000{0 1}{0 1}00{0 3}211-1 Siphonopidae 33011-----0-1----1--00000001-102120001-----01---0-1-21----1-0--12111--00022000-010011110010101001011101011010100100101102-0002-212-211-3--11100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?1021111{0 1}112012011110{1 2}11100{0 1}10{0 1}101000{0 1}10????00110?2?111{0 1}1200{0 1}011123{1 2}0{0 2}1{0 1}101{0 1}000000{0 1}{0 1}0211-1 Indotyphlidae 33011-----0-1----1--00000001-102120001-----01---0-1-21----1-0--12111--0002200{0 1}-010011110010101001011101011010100100101101-0002-112-211-3--01100?2?012-000021------1?00111?220112?020----------------------------------------0??-00110?102111111120120011?{0 1}{2 3}110010000111{1 2}000{0 1}{0 1}01?00{0 1}{0 1}{0 1}1{0 1}{0 2}1111{0 1}1{0 1}0{0 1}{0 1}0{0 1}1{0 1}{0 2}321{0 2}10{0 1}11{0 1}{0 1 7}0000{0 1}000211-1 Eocaecilia 330100--0-1-1----000000000001001110001--00001---0-100111000?0--12010000000000100100111100??0010010111010100000001011001010?00--21??201-3--?1?0002?002?00-02?????0111000112?201121010013??????????????0122012100010?011001?1?0??-00000?0?0000000-0?-??????01?1?0?000????????00????????????20????10?000001002?000000?00--?-?21111 Chinlestegophis 2?010000011-1----???00000????00?0100000102100?01001100001?000--00?00??000??000-01000112???1?????100??1?0111????0011?1??0???00101111??103--10?????0?00?00000???????1??????????????110???0-000?0????0???11000????????????????-0002001000??00?001000?1??????0??1???-??????????1?????????0?????------0????-??0--?1000???10???---111 Rileymillerus 2?0?????011-1----0??00000???0???010001-0???0????0???000?1???0--10?0??0000?0000-01000111?001000??10000110111?????0??1?11010?0010????0-10?0??0???????????????????????????????????????????????????????????????????????????????-00?200??00??0??00?01001??????0????0??0?????????1??????????????????????????-0??--???0????????????0?0 Huskerpeton 3?011-110111001110110000?0002101011001--0001000010010110000-0--1211000100?2010-0101001200?000100?00?????000?????10010000??001110111101000211???????????????????????????????????????????????????????????????????????????????01122010?00??000001010?1??????0???10?000????????1?????????????0-????10?????-1??--???0??????????100-0 Nannaroter 3?011-1101?100110???0000?00011000?00?1--000100000001011?0?0-0--121000010113010-0121?0?2?010002000000002?0-0????110010000000010101??1020???01?????????????????????????????????????????????????????????????????????????????????111111?00??000001010?1??????0???10?000????????1?????????????0-????10?????-1??--???0??????????100-0 Tambaroter 2?011-110111001110110000?0002101011001--00010000100100100?0-0--121100?10012010-0101???200?0?????000??0??0-0??????000???0??001110111101???010????????????????????????????????????????????????????????????????????????????????1??2110?00??000001010?1??????0???10?000????????1???????????????????1??????-1??--???0??????????100-0 Carrolla 3?011--01--1?0100???01000??0210?130001-----00?00111-20---01----12101-010123000-011-10-301-001-00100111-110010001101-0001001100111110103--111???????????????????????????????????????????????????????????????????????????????-001-000?00??00?001010?1??????0???10?000????????0?????????????0-????10?????-1??--???0??????????100-0 Pariotichus 3?011-110111001100010000?0??110??110?1--00010000?001011?000-0--12?00?0102?3010-110????2???0???????0?????0?0???????0???????0011??1????20????1???????????????????????????????????????????????????????????????????????????????????10?0?00??00?001010?1??????0????????0???????????????????????????????????-???--????????????????0-0 ; END; BEGIN TREES; Title Trees; LINK Taxa = Taxa; TRANSLATE [0] 1 Acanthostega, [1] 2 Proterogyrinus, [2] 3 Balanerpeton, [3] 4 Dendrerpeton, [4] 5 Tuditanus, [5] 6 Asaphestera, [6] 7 Hapsidopareion, [7] 8 Saxonerpeton, [8] 9 Pantylus, [9] 10 Cardiocephalus_sternbergi, [10] 11 Cardiocephalus_peabodyi, [11] 12 Euryodus_primus, [12] 13 Euryodus_dalyae, [13] 14 Pelodosotis, [14] 15 Micraroter, [15] 16 Rhynchonkos, [16] 17 Microbrachis, [17] 18 Batropetes, [18] 19 Utaherpeton, [19] 20 Stegotretus, [20] 21 Sauropleura_scalaris, [21] 22 Ptyonius, [22] 23 Urocordylus, [23] 24 Keraterpeton_galvani, [24] 25 Batrachiderpeton, [25] 26 Diceratosaurus, [26] 27 Diplocaulus_magnicornis, [27] 28 Diploceraspis, [28] 29 Scincosaurus, [29] 30 Brachydectes, [30] 31 Adelogyrinus, [31] 32 Oestocephalus, [32] 33 Phlegethontia, [33] 34 Greererpeton, [34] 35 Seymouria_baylorensis, [35] 36 Limnoscelis, [36] 37 Branchiosauridae, [37] 38 Micromelerpetontidae, [38] 39 Tersomius, [39] 40 Ecolsonia, [40] 41 Acheloma, [41] 42 Eryops, [42] 43 Doleserpeton, [43] 44 Salamanders, [44] 45 frogs, [45] 46 Albanerpetontidae, [46] 47 Micropholis, [47] 48 Eoscopus, [48] 49 Tambachia, [49] 50 Triadobatrachus, [50] 51 Karaurus, [51] 52 Gerobatrachus, [52] 53 Platyrhinops, [53] 54 Amphibamus, [54] 55 Rhinatrematidae, [55] 56 Ichthyophiidae, [56] 57 Scolecomorphidae, [57] 58 Herpelidae, [58] 59 Caeciliidae, [59] 60 Typhlonectidae, [60] 61 Dermophidae, [61] 62 Siphonopidae, [62] 63 Indotyphlidae, [63] 64 Eocaecilia, [64] 65 Chinlestegophis, [65] 66 Rileymillerus, [66] 67 Huskerpeton, [67] 68 Nannaroter, [68] 69 Tambaroter, [69] 70 Carrolla, [70] 71 Pariotichus; TREE MPT = (1,(34,((3,4),(42,((49,(40,41)),((65,66),((37,38),((39,47),(48,(53,(54,(43,((52,((45,50),(46,(44,51)))),(64,(55,(56,(57,(58,(63,((59,60),(61,62)))))))))))))))))))),(2,(35,(36,(19,((17,(31,(29,((21,(22,23)),((30,(32,33)),((24,25),(26,(27,28)))))))),(6,(5,((7,8),(((9,20),(16,(18,70))),(68,((14,15),((67,69),(71,((10,11),(12,13))))))))))))))))[% ] [% ] [% setBetweenBits = selected ]; TREE lepo = (1,(34,((3,4),(42,((49,(40,41)),((65,66),((37,38),((39,47),(48,(53,(43,54)))))))))),(2,(35,(36,(19,((6,(5,((7,8),(((9,20),(16,(18,70))),(68,((14,15),((67,69),(71,((10,11),(12,13)))))))))),(17,(31,(29,((21,(22,23)),(((24,25),(26,(27,28))),(30,((32,33),((46,(44,(51,(45,(50,52))))),(64,(55,(56,(57,(58,(63,((59,60),(61,62))))))))))))))))))))))[% ] [% ] [% setBetweenBits = selected ]; END; begin paup; log start file = unpublished.log append = yes; set tcompress = yes increase = auto autoinc = 100 autoclose = yes outroot = paraphyl; pscores 1 2 / khtest = yes nonparamtest = yes testdetails = yes; cleartrees; constraints lepo backbone = ( Acanthostega ( Doleserpeton ( Carrolla , Eocaecilia ) ) ); hsearch enforce = no addseq = random nreps = 10000; describe 1; savetrees file = a1.tre; contree all / strict = yes majrule = no adams = no file = a1con.tre; cleartrees; hsearch enforce = yes constraints = lepo; describe 1; savetrees file = a2.tre; contree / file = a2con.tre; log stop; BEGIN MRBAYES; log start filename = Chinle.log replace; lset rates = gamma; set autoclose = yes; mcmcp ngen = 1000000 printfreq = 1000 samplefreq = 100 nchains = 4 savebrlens = yes filename = Chinle; mcmc; sumt filename = Chinle burnin = 2500 contype = halfcompat; log stop; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = unord: 1- 319; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = 'Mk1 (est.)': 1- 319; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1666721851527; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 6695141642744770495; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 7475924472910727537; mqVersion 370; checksumv 0 3 54579910 null getNumChars 319 numChars 319 getNumTaxa 71 numTaxa 71 short true bits 2305843009213694207 states 255 sumSquaresStatesOnly 98489.0 sumSquares -4.657802878611662E20 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false true 391; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 946; setLocation 1358 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.ManageTrees.ManageTrees; tell It; getTreeBlock 0; tell It; setSelected 2; attachments ; endTell; showTrees 0 #mesquite.lists.TreesList.TreesList; tell It; setTreeBlock 1; getWindow; tell It; useTargetValue off; setTargetValue ; 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; newAssistant #mesquite.lists.NumForTreeList.NumForTreeList; tell It; suppress; setValueTask #mesquite.parsimony.Treelength.Treelength; tell It; getEmployee #mesquite.parsimony.TreelengthForMatrix.TreelengthForMatrix; tell It; getEmployee #mesquite.parsimony.ParsCharSteps.ParsCharSteps; tell It; setModelSource #mesquite.parsimony.CurrentParsModels.CurrentParsModels; endTell; endTell; getEmployee #mesquite.charMatrices.CharMatrixCoordIndep.CharMatrixCoordIndep; tell It; setCharacterSource #mesquite.charMatrices.StoredMatrices.StoredMatrices; tell It; setDataSet #7475924472910727537; endTell; endTell; endTell; desuppress; endTell; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 874; setLocation 1358 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.lists.TreesList.TreesListWindow.ibeam; endTell; endTell; showWindow; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #6695141642744770495 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; setTreeBlockID 01841050aea513; toggleUseWeights off; endTell; setAssignedID 1973.1666721041729.4199668657605531895; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 874; setLocation 1358 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.ladderize; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareLineTree.SquareLineTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle off; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 4; showEdgeLines on; orientUp; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; setSelectedTaxonHighlightMode 1; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; setTaxonNameStyler #mesquite.trees.NoColorForTaxon.NoColorForTaxon; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 2; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; getInfoPanel; tell It; btspOpen true; apOpen false; endTell; toggleInfoPanel off; togglePrintName off; showWindow; newAssistant #mesquite.trees.TreeLegendMaker.TreeLegendMaker; tell It; setOffsetsX 5; setOffsetsY 4; getLegendsVector; tell It; distributeCommands; setBounds 5 4 231 41; setOffsetX 5; setOffsetY 4; endDistributeCommands; endTell; newLegendItemNoCalc #mesquite.trees.TreeValueUsingMatrix.TreeValueUsingMatrix; tell It; getEmployee #mesquite.parsimony.TreelengthForMatrix.TreelengthForMatrix; tell It; getEmployee #mesquite.parsimony.ParsCharSteps.ParsCharSteps; tell It; setModelSource #mesquite.parsimony.CurrentParsModels.CurrentParsModels; endTell; endTell; getEmployee #mesquite.charMatrices.CharMatrixCoordIndep.CharMatrixCoordIndep; tell It; setCharacterSource #mesquite.charMatrices.StoredMatrices.StoredMatrices; tell It; setDataSet #7475924472910727537; endTell; endTell; endTell; calculate; endTell; 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; toggleShow consensusFrequency; toggleShow bootstrapFrequency; toggleShow posteriorProbability; toggleShow consensusFrequency; toggleShow posteriorProbability; toggleShow bootstrapFrequency; setDigits 4; setThreshold ?; writeAsPercentage off; toggleCentred off; toggleHorizontal on; toggleWhiteEdges on; toggleShowOnTerminals 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; toggleShowOnTerminals on; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #7475924472910727537 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 874; setLocation 1358 -8; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.NoColor.NoColor; 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 on; toggleSeparateLines off; toggleShowStates on; toggleReduceCellBorders off; toggleAutoWCharNames on; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleColorOnlyTaxonNames off; toggleShowPaleGrid off; toggleShowPaleCellColors off; toggleShowPaleExcluded off; togglePaleInapplicable on; togglePaleMissing off; toggleShowBoldCellText off; toggleAllowAutosize on; toggleColorsPanel off; toggleDiagonal on; setDiagonalHeight 80; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; endTell; getEmployee #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; 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.stratigraphictools.ColorScaleCells.ColorScaleCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.SmallStateNamesEditor.SmallStateNamesEditor; tell It; panelOpen true; endTell; endTell; endTell; endTell; end;