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1: Beast2.1.3 R1 1: Beast2.1.3_r1 0.93 Canis adustus 0.89 Canis mesomelas 0.37 Canis simensis Canis arnensis 1 Lycaon pictus 1 Cuon javanicus 0.57 Xenocyon texanus 0.91 Canis antonii 0.96 0.35 Canis falconeri 1 Canis dirus 1 Canis armbrusteri 0.060.27 Canis lupus Canis chihliensis Canis etruscus 0.98 0.99 0.26 Canis variabilis 0.11 Canis edwardii 0.93 Canis mosbachensis 0.68 0.58 Canis latrans Canis aureus 0.94 Canis palmidens 0.94 Canis lepophagus 1 0.41 Canis thooides Canis ferox 0.99 Eucyon davisi 0.8 Cerdocyon texanus Vulpes stenognathus Leptocyon matthewi 0.98 Urocyon cinereoargenteus 0.85 Urocyon minicephalus 0.96 1 Urocyon citronus 1 Urocyon galushi 0.96 Urocyon webbi 1 1 Metalopex merriami 0.23 Metalopex macconnelli 0.68 Leptocyon vafer 1 Leptocyon leidyi Leptocyon vulpinus 0.7 Leptocyon gregorii 1 Leptocyon douglassi Leptocyon mollis 0.32 Borophagus dudleyi 1 Borophagus hilli 0.98 Borophagus diversidens 0.97 Borophagus secundus 0.18 Borophagus parvus 1 Borophagus pugnator 1 Borophagus orc 1 Borophagus littoralis 0.96 Epicyon haydeni 1 0.92 Epicyon saevus Epicyon aelurodontoides Protepicyon raki 0.98 0.28 Carpocyon limosus 0.96 Carpocyon webbi 0.97 0.98 Carpocyon robustus Carpocyon compressus 0.17 0.87 Paratomarctus euthos Paratomarctus temerarius Tomarctus brevirostris 0.31 0.85 0.35 Tomarctus hippophaga 0.17 Tephrocyon rurestris Protomarctus opatus 0.24 0.58 Microtomarctus conferta Metatomarctus canavus Psalidocyon marianae 0.79 1 Aelurodon taxoides 0.32 0.27 Aelurodon ferox 1 Aelurodon stirtoni 0.14 Aelurodon mcgrewi 0.33 Aelurodon asthenostylus 0.711 Euoplocyon brachygnathus 0.92 Euoplocyon spissidens 1 Cynarctus crucidens 1 Cynarctus voorhiesi 0.38 Cynarctus saxatilis 0.52 Cynarctus galushai 0.99 1 Cynarctus marylandica 0.54 1 Paracynarctus sinclari 0.91 Paracynarctus kelloggi Desmocyon matthewi 0.98 Desmocyon thomsoni Cormocyon copei Cormocyon haydeni 0.96 Phlaocyon mariae 0.53 0.88 Phlaocyon yatkolai 1 Phlaocyon leucosteus 0.9 0.94 Phlaocyon marshlandensis 1 1 Phlaocyon multicuspus Phlaocyon achoros 0.93 Phlaocyon annectens 0.18 Phlaocyon latidens Phlaocyon minor 0.89 0.8 1 Cynarctoides emryi 1 Cynarctoides accridens 1 Cynarctoides gawanae 1 0.69 Cynarctoides luskensis 0.69 Cynarctoides harlowi Cynarctoides lemur Cynarctoides roii Rhizocyon oreganensis 1 Otarocyon cooki 0.55 Otarocyon macdonaldi Oxetocyon cuspidatus 0.21 Osbornodon brachypus 1 Osbornodon iamonensis 0.18 0.22 Osbornodon fricki 0.26 Mesocyon brachyops 0.25 Mesocyon coryphaeus Cynodesmus martini 0.42 1 Paraenhydrocyon wallovianus 1 Paraenhydrocyon robustus 0.57 0.41 Paraenhydrocyon josephi Mesocyon temnodon Cynodesmus thooides 0.75 Enhydrocyon basilatus 0.64 Enhydrocyon stenocephalus 0.66 0.66 Enhydrocyon crassidens 1 Enhydrocyon pahinsintewakpa 1 0.59 Ectopocynus intermedius 0.65 0.93 Ectopocynus antiquus 0.98 0.77 Ectopocynus simplicidens Philotrox condoni 0.76 Sunkahetanka geringensis 0.27 Caedocyon tedfordi 0.65 Osbornodon sesnoni 0.9 Osbornodon renjiei Hesperocyon coloradensis 0.46 Hesperocyon gregarius 0.36 Archaeocyon falkenbachi 0.93 Archaeocyon pavidus Archaeocyon leptodus Prohesperocyon wilsoni outgroup 40 30 20 10 0 millions of years ago 2: Beast2.1.3_r2 0.93 Canis adustus 0.93 Canis mesomelas Canis simensis 0.66 Canis latrans 0.27 Canis aureus 0.92 Canis variabilis 0.4 Canis mosbachensis 0.26 Canis edwardii 0.34 1 Canis dirus 0.331 Canis armbrusteri Canis lupus Canis palmidens 0.18 1 Lycaon pictus 1 Cuon javanicus 0.98 0.65 0.64 Xenocyon texanus 0.8 Canis antonii 0.98 Canis falconeri 0.92 Canis chihliensis Canis etruscus 1 Canis arnensis 0.93 Canis lepophagus 1 Canis thooides 1 Canis ferox Eucyon davisi 0.99 Cerdocyon texanus 0.48 Vulpes stenognathus Leptocyon matthewi 0.99 Urocyon cinereoargenteus 0.72 0.75 Urocyon minicephalus 1 Urocyon citronus 1 Urocyon galushi 1 0.97 Urocyon webbi 1 Metalopex merriami 1 Metalopex macconnelli 0.92 Leptocyon vafer Leptocyon leidyi 1 Leptocyon vulpinus 0.98 Leptocyon gregorii 1 Leptocyon douglassi Leptocyon mollis 0.77 Borophagus diversidens 0.96 Borophagus hilli 0.95 Borophagus dudleyi 0.93 Borophagus secundus 1 Borophagus parvus 1 0.49 Borophagus orc Borophagus pugnator 1 Borophagus littoralis 0.98 Epicyon haydeni 1 0.95 Epicyon saevus Epicyon aelurodontoides 1 Protepicyon raki 0.32 Carpocyon limosus 1 Carpocyon robustus 0.97 1 Carpocyon webbi Carpocyon compressus 0.03 0.96 Paratomarctus euthos 0.04 Paratomarctus temerarius Psalidocyon marianae 0.07 Tephrocyon rurestris 0.07 0.86 Tomarctus brevirostris Tomarctus hippophaga 0.28 Protomarctus opatus 0.24 Microtomarctus conferta Metatomarctus canavus 1 Aelurodon taxoides 0.671 0.35 Aelurodon ferox 0.42 0.69 Aelurodon stirtoni 1 Aelurodon mcgrewi 0.45 Aelurodon asthenostylus 0.46 Euoplocyon brachygnathus 0.35 Euoplocyon spissidens 1 Cynarctus crucidens 1 Cynarctus voorhiesi 0.39 Cynarctus saxatilis 0.91 0.5 Cynarctus marylandica 1 Cynarctus galushai 1 1 Paracynarctus sinclari Paracynarctus kelloggi 0.98 Desmocyon matthewi 0.99 Desmocyon thomsoni Cormocyon copei Cormocyon haydeni 0.97 Phlaocyon mariae 0.55 0.06 0.95 Phlaocyon yatkolai 1 Phlaocyon leucosteus 0.81 Phlaocyon marshlandensis 1 0.99 Phlaocyon multicuspus Phlaocyon achoros 0.94 Phlaocyon annectens 0.98 Phlaocyon latidens 1 Cynarctoides emryi 1 Cynarctoides accridens 1 Cynarctoides gawanae 0.96 0.68 Cynarctoides luskensis 0.81 0.79 Cynarctoides harlowi 1 Cynarctoides lemur Phlaocyon minor Cynarctoides roii Rhizocyon oreganensis 1 Otarocyon cooki 0.62 Otarocyon macdonaldi Oxetocyon cuspidatus 0.63 Osbornodon fricki 1 Osbornodon brachypus 0.27 0.3 Osbornodon iamonensis 0.33 Mesocyon brachyops 0.27 Mesocyon coryphaeus Cynodesmus martini 0.92 1 Paraenhydrocyon wallovianus 1 Paraenhydrocyon robustus 0.93 0.38 Paraenhydrocyon josephi Mesocyon temnodon Cynodesmus thooides 0.72 Enhydrocyon basilatus 0.57 Enhydrocyon stenocephalus 0.91 0.6 Enhydrocyon crassidens 1 Enhydrocyon pahinsintewakpa 1 0.38 Ectopocynus intermedius 0.51 0.91 Ectopocynus antiquus 0.98 0.87 Ectopocynus simplicidens Philotrox condoni 0.76 Sunkahetanka geringensis 0.54 Caedocyon tedfordi 0.78 Osbornodon sesnoni 0.88 Osbornodon renjiei Hesperocyon gregarius 0.41 Hesperocyon coloradensis 0.65 Archaeocyon falkenbachi 0.94 Archaeocyon leptodus Archaeocyon pavidus Prohesperocyon wilsoni outgroup 40 30 20 10 0 millions of years ago 3: mb3.2.5_mb1_orig Borophagus diversidens 1 0.35 Borophagus dudleyi 0.96 Borophagus hilli 0.96 Borophagus secundus 0.91 Borophagus parvus 1 0.75 Borophagus orc Borophagus pugnator 1 Borophagus littoralis 0.99 Epicyon haydeni 1 0.63 Epicyon saevus Epicyon aelurodontoides 1 Protepicyon raki 0.32 Carpocyon limosus 0.92 Carpocyon webbi 0.98 1 Carpocyon robustus Carpocyon compressus 0.95 Paratomarctus euthos 0.46 Paratomarctus temerarius 0.99 Tomarctus brevirostris 0.24 Tomarctus hippophaga 0.38 0.47 Protomarctus opatus Tephrocyon rurestris 0.3 0.78 Microtomarctus conferta Metatomarctus canavus Psalidocyon marianae 0.93 0.27 Aelurodon mcgrewi 0.26 Aelurodon asthenostylus 1 Aelurodon stirtoni 1 Aelurodon taxoides 0.53 Aelurodon ferox 1 Euoplocyon brachygnathus 0.76 Euoplocyon spissidens 1 Cynarctus crucidens 1 Cynarctus voorhiesi 0.41 Cynarctus saxatilis Cynarctus galushai 0.18 1 0.99 Paracynarctus sinclari 0.38 0.2 Paracynarctus kelloggi Cynarctus marylandica 0.67 Desmocyon matthewi 0.31 Desmocyon thomsoni Cormocyon copei Cormocyon haydeni 0.87 Phlaocyon mariae 0.16 Phlaocyon yatkolai 0.99 Phlaocyon multicuspus 0.26 0.65 Phlaocyon achoros 0.97 1 Phlaocyon leucosteus Phlaocyon marshlandensis 0.21 Phlaocyon annectens 0.3 Phlaocyon latidens Phlaocyon minor Cynarctoides emryi 0.23 1 0.25 1 Cynarctoides accridens 0.99 Cynarctoides gawanae 0.22 Cynarctoides luskensis 0.2 0.68 Cynarctoides harlowi 0.97 Cynarctoides lemur Cynarctoides roii 1 Otarocyon cooki 1 Otarocyon macdonaldi Oxetocyon cuspidatus Rhizocyon oreganensis 1 Lycaon pictus 1 Cuon javanicus 0.51 Xenocyon texanus 0.98 Canis antonii 0.55 Canis falconeri 1 Canis dirus 1 Canis armbrusteri 0.140.29 Canis lupus Canis chihliensis 0.98 Canis etruscus 0.02 Canis palmidens 0.12 Canis edwardii 0.75 Canis variabilis 0.45 Canis latrans 0.71 0.15 Canis aureus Canis mosbachensis 0.94 Canis adustus 1 0.71 Canis mesomelas 0.44 Canis simensis Canis arnensis 0.64 0.81 Canis lepophagus 0.93 Canis thooides 1 Canis ferox 1 0.95 Eucyon davisi Cerdocyon texanus 0.78 Vulpes stenognathus Leptocyon matthewi 0.93 Urocyon cinereoargenteus 0.79 Urocyon minicephalus 0.99 1 Urocyon citronus 1 Urocyon galushi 0.89 Urocyon webbi 1 0.49 Metalopex merriami 0.22 Metalopex macconnelli Leptocyon vafer 0.94 0.41 Leptocyon leidyi 1 Leptocyon gregorii Leptocyon vulpinus 0.82 0.33 Leptocyon douglassi Leptocyon mollis 0.23 Prohesperocyon wilsoni 0.35 Archaeocyon leptodus 0.9 Archaeocyon pavidus Archaeocyon falkenbachi 0.66 Ectopocynus intermedius 0.87 Ectopocynus antiquus 0.19 Ectopocynus simplicidens Caedocyon tedfordi 0.45 0.78 Enhydrocyon basilatus 0.92 Enhydrocyon stenocephalus 0.72 0.17 Enhydrocyon crassidens 0.3 Enhydrocyon pahinsintewakpa 0.5 Philotrox condoni 0.38 Sunkahetanka geringensis 0.5 Mesocyon coryphaeus 0.14 Mesocyon brachyops 0.57 Mesocyon temnodon 0.42 Cynodesmus martini 0.98 Cynodesmus thooides 0.69 Osbornodon fricki 1 Osbornodon brachypus 0.92 Osbornodon iamonensis 0.95 Osbornodon sesnoni 0.75 0.11 Osbornodon renjiei 0.87 Paraenhydrocyon wallovianus 0.83 Paraenhydrocyon robustus Paraenhydrocyon josephi 0.75 Hesperocyon coloradensis Hesperocyon gregarius outgroup 40 30 20 10 0 millions of years ago 4: mb3.2.5_mb2_orig 0.931 Canis adustus 0.881 Canis mesomelas Canis simensis 1 Lycaon pictus 1
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