User:Wyang/rCRS



               <taxon idref="NC_001643_Pan_troglodytes_0"/> <taxon idref="NC_001644_Pan_paniscus_0"/> <taxon idref="NC_013993_Homo_sp_Altai_40000"/>

<alignment id="alignment" dataType="nucleotide"> <taxon idref="FM865409_Neandertal_38790"/> ACGCCCACCTACTACAGACAGTCAAATACTGAACATCCTACCCGAAACCTCCAACCCAGCAACCACCCCCCCCCGCATCCCTTAAACCCCACCCGTCCCACCATTACCTCACTCACCAAGAAACACCCGCCAGAAACAACATACCACCTAAAAAAATCCTCCCCTCAAAACCAACGAAACGCAAATCCAAAGCCACCCCTTAGACAACACTCCACCACCCCACCACACACTTAACCCCTACCAAAATCACCTACCAATTCCGCATGCCGCAATAAACCACCCCACACCAAACCAACCAAATAATCCACTACCCTCTACTTCGCACCCCTCCTACACCAAACGCATTCAGCAAACGATTTATACAAACTTCAATCCGTCCGAACACACTAATCCCCTACCAAACACTTCTACAAAACAGTAAAAAAACCTCCACAGTCACCTGACCGCTCAAAAACCCACACATTCAACACCCCTTACACCAACTATAACACGACACAACCATCCAAAAAATAGCCTCACTTTATTTTCATTCACAACCACCCCGCAAATCCACGAAAAACATACCCCCAACGCGACCTGCAGCTCAACAACTCCCCCCCACCCCCTCCCCCACACCCCACAACTATCCAAAAAGTATAACCACCCACCCTCAACATCCTTAAACAGCCCTAACTACCACTAAACAACCAATACACATACCTTACAGCGACCTATCCCCCCTCCACTATAACCCAAACCACGCTCCAATCAACTCCTGGTCCACTACCACATCTCACGCATTAGACCAAATAACCTCAAGCCCCTACCACACCCCACAATCCTCAGCCTCCAATTTAACTCACACAGCTCCACCACAACATCATCACATTCCTAAAACCCCCCCCCCCCAAACCTACACACATCCCTATTTCCAACCAACCTTATCCCAAAAATACATGCATGAATCCAGTCGAACTATAAAACACAAATCCCTCACCTCCCCCAATCACCACCACTGAATTAGCACAACCTTCCATCGTCTAAACAAACCAACCGCCTATCCCTCAAAATATCCAACCTCATCACCCCCACATCCACTCTCACCCATATCCAACTCCACAGCATCGCCCTACCAATCAATACACTTAAAAAAATCGTAACCTGGAACAAAAACCACGGAATACCACCCACAGCACAATAGATAGAATAACTTCTCAAGTCCTTTCCCACTCTCCCACGTCTCAACAAAATTTCCACTGAAACCATCGCCCCACCCCCACACCTCAACGCCCCCTCCAATCTAGCACCGCCCCCAACCCCCATCAACAAACCGACTCTCTAAACGTACCTTAATAAACCACAATCCAACAAATATCATACACTCCTAAGGACCTACTACTAACCTCGCCCAAATCAACTAAGCATCAGGCAATTTAGCCATCCACTAACCCCAAAAATATCCATCAAGCAAAACTCACAAAAAGACTGTTAGCAACGGCATGCTACTCCACACACCAAGCTATCTAGCCCCATCCCCAATCCAAAACAACAAAGACACCTGAACATTAAACACTTTCATCCCACGTCATAACCAATACACGCCCAAGCAGTACTCTGTATCACCCAAACATACTCTAATTCACCCACTAAACGCACACTCTTATCACGCATACCCAAAACTCTCTATCCCATATAGTCAACTCCACACCTCATAACCCGCCCAAGCCAATCTTAAACCAACAAGCCACCAGCCCACGATCCCCACCCAACAACCAACACAAGCTAAAACACACCCAATCAACTACGACATTCAATTCCAATCACTCCCCACTCCAAAGCGCAACCCGATCAACACACACAACAAAAACCATCTTAAACCACAATAAGTTATAGTCTTCCAACAGCCATCCCTCCCCCCAATTACACCCATCCTTCATCCTCCCCTAAATCTACATCTCCACCCACGTTATGTAATGTCCCTAAGTACCCATAACCCCACAAAATTATAAAACCCCAAACCT CGCCCCTACCCCCTCCAACCAATTCCAATCAATCCTACAAACAAATTAAAATGACCAACCCACATGCTAAAAAAACACAGCCTCATTAAATCCATAAAAGTCACCACCAACAAAAAAGGCTATTCACCCCCCCACTTGTTCAATTCCCAAGACACAACACCCATCACCATCACACACAGAAACCAATAAAAGAACCAACATACCACCCCATTCCCCAATTCACCCCATCCCACTCCCCAACCCAAATCACACCACGACACCACTAAAAAAACCCTAACCAACCATAACACAAACATTCCCACATCCCGTCCCAACCGAACGCACACCACCCAACCTCACCAATCTCCCACAACTAACTCTCAAAACCACCCAAAATCAATTAAGACTCACCAACTACTCACCCTGAAATCTACAAACCTTAACCACTCCCGAATACCCCTAACAGCATAACCCCGAAACAAGCTATTACCCACCAAACTCCACCACCCCACTCACCCATACAAACCAACACCACCCTCCACCTAATATACAAATTAATAACCTCCCACCTTCAGAACTGAACACCAATCTCATAGCCAACACACCCCATCAAAGCACCCCTCCAACACAAACCCACACACCTCCACCCCCCTCGTCTACGCCTACCGCGTCATCCCTCCCTCTCAACACCTTAACTCACCTTTTCCCAAACGCACAATTCGCACACACAACGCCACCAACCCCAACCTAAGCTAGCCAACAGATACACACTTGCCATACTCATCAACATCTCCACAGCCCAGCAATACCGCCTAACCAATCCAACTAACACCTCCTCTCCCCAAATCACCCAACAAAACTACTTACCCAAACCCAAAACAACAATCCCACCACAACCCACACACCACTACAAACCACCCCCCAAATCAACATAAACACTCCTACAACCCTAATCCAACACCCTATAAGCAATACCCCAACAACGCCTCCCCCACAATACCGCCCCCTCTAATTAAAAAACACATCTACCCCTCCAAAAAATCCATCCCACCCCACACAACACCACATTTCCTCCGACCTCTAATTCCAATATCCCCCTCTCATCTCAACCTACAACACACAATCTTCCTCCACCCAAACCCCAACACCTCTCAATAACACCCCACCATAAACAACATTCCCACACCTCCACCACCTACTTGCACGCACCACACAAAGAATAATAGCACCCCCCCACAACATATCCCTCCCACCACACACAAGGTTGTGGTGTAAGGTGGTTTGTTTTTGTAAGTTCTGTGTTTTGTTGATTGTAATTATTAGAGGTCTATTAGGTTGGTTGAGGAGTGCGGTTAGGAGGGAAGGGGGAGTTGGGTGACTTTAACAACTAAGGAGGTGGTTTTGGTGTTTGTAAAATTTAAGTTTATTATGTTGGTGGCAACATCCAAAATCCACCCCCCACCCCAAACCCACTCCCGCCACCAAACACGCCAACCACCTAACCCCTACATTCACCCCTCCTCCAACTCCCCACCAACATCAATCCAACACCCTCCGTATAAACCACTCCAACAAACAGCAATACAACCCACTGACGTGACAACCAACTCCCAACTCTCTCACCTTACAAACCCACGCAAAACCCAACCCTCTACCCCTCCACACCCCATCCTCCAGAAAACAACCACCACTTCACCCACCTCCCGCAATCACCCATCACCTCAAACCTCAAACCCCGAACCCTTACAAACAATCAACAATTACACACCCTACACAAAAACCTTCCTAAAACAACCAACACAAACCCATACAACAGC <taxon idref="KF672800_Turkana_Kenya_L0a_0"/> ACGCCCACCTACTACAGACAGTCAAATACTAAACACCCTACCCGAAACCTCCAACCCAGCAACCATCCCACCCCGCATCCCTTAAACCCCACCCGTCCCACCATTACCTCACTCACCAAGAAACACCCGCGAGAAACAACATACCACCTAAAAAAATCCTCCCCTCAAAACCAACGAAACGCAAATCCAAAGCCACCCCTCAGGCAACACCCCACCACCCCACCACACACTTAACCCCTACCAAAATCACCTACCAATTCCGCATGCCGCAATAAACCACCCCACACCAAACCAACCAAATAATCCACTACCCTCTACTTCGCACCCCTCCTACACCAGACGCATTCAACAAACGACTTATACAAACTTCAATCCGTCCGAACACACTAATCCCCTACCAAACACTTCTACAAAACAGTAAAAAAACCTCCACAGTCACCTGACCGTTCAAAAACCCACACACTCAACACTCCTCACACCAACTATAACACGACACAACCATCCAAAAAATAGCCTCACTTTATTTTCATTCACAACCACCCCGCAAATCCACGAAAAACATACCCCCAACGCGACCTGCAGCTCAACAACTCCCCCCCACCCCCTCCCCCACACCCCACAACCATCCAAAAAGTATAACCACCCACCCTCGACATCCTTAAACAGCCCTAACTACCACTAAACAACCAATACACATACCTTACGGCGACCTATCCCCCCTCCACTATAACCCAAACCACACTCCAATCAACTCCTGGCCCACCACCACATCTCACGCACTAGGCAAAATAACCTCAAGCCCCTACCACACCCCACAATCCTCAGCCTCCAATCTAACTCACACAGCCCCACCACAACATCATCACATTCCTAAAACCCCCCCCCCCCAAACCTACACACATCTCTATTTTCAACCAACCTTATCCCAAAAATACACGCATGAATCCAGTCGAACTATAAAACACAAATCCCTCACCTCCCCCAATCACCACCACTGAATTAGCACAACCTTCCATCGTCTAAACAAACCAACCGCCTATCCCTCAAAATATCCAACCTCATCACACCCACACCCACTCTCACCCATATCCAACTCCACAGCATCGCCCTGCCAATCAATACACTTAAAAAAATCGTAACCTAGAACAAAAACCACGGAATACCACCCACAACACAATAGATAGAATAACTTCTCAAGTCCTTTCCCACTCTCCCACGTCTCAACAAAATTTCCACTGAAACCATCGCCCCACCCCCACACCTCAACGCCTCCTCCAATCCAGCACCGCCCCCAACCCCCATCAACAAACCGACTCTCTAAACGTACCTTAATAAACCGCAATCCAACAAATATCATACACTCCTAAGGGCCTACTACTAACCTCGCCCAAATCAACTAAGCATCAGGCAATTCAGCCATCCACTAATCCCAAAAACACCCATCAAGCAAAATTCACAAAAAGACTGTTAGCAGCGGCATGCTACTCCACACACCAAGCTATCTAGCCCCATCCCCAATCCAAAACAACAAAGACACCTAAACATTAAACACTTTCATCCCACGTCATAACCAATACACGCCCAAGCAGTACTCTGTATCACCCAAACATACTCCAATTCACCCACTAAACGCACACTCTTACCACGTATACCCAAAACTCTCTATCCCATATAGTCAACTCCACACCTCATAACCCGCCCAAGCCAATCTTAAACCAACAAGCCACCAGCCCACGATCCCCAGCCAACGACCAACACAAGCTAAAACACACCCAATCAACTACGACATTCAATTCCAATCACTCCCCACTCCAAAGCGCAACCCGATCAACACACACAACAAAAACCATCTTAAACCACAATAAGTTATAGTCTTCCAACAGCCATCCCTCCCCCCAATTACACCTATCCTTCATCCTCCCCCAAATCTACATCTCCACCCACGTTATGTAATGTCCCTAAGTACCCATAACCCCACAAAATTATAAAACCCCAAACCT CGCCCCTACCCCCTCCAACCAATTCCAATTAATCCTACAAACAAATCGAAATGACCAACCCACATGCTGAAAAAACACAGCCTCATTAAATCCATAAAAATCACCACCAACAAAAAAGACTATTCACCCCCCCACTTGTTCAATTCCCAAGACACAACACCCATCACCATCACACACAGAAACCAATAAAAGAACCAACATACCACCCCATTCCCCAATTCACCCCATCCCACTCCCCAACCCAAATCACACCACGACACCACTAAAAAAACCCTAACCAACCATAACACAAACATTCCCACATCCCGTCCCAACCGAACGCACACCACCCAACCTCACCAATCTCCCACAACTAACTCTCAAAACCACCCAAAATCAATTAAGATTCACCAACTACTCACCCTGAAATCAACAAACCTTAACCACTCCCGAACACCCCTAACAACATAACCCCAAAACAAGCTACTACCTGCCAAACTCCACCACCCCACTCACCCATACAAACCAACACCACTCTCCACCTAATATACAAATTAATAACCTCCCACCTTCGGAACTGAACACCAATCTCATAACCAACACACCCCATCAAAACACCCCTCCAACACAAACCCGCACACCTCCACCCCCCTCGTCTACGCTTACCACGTCATCCCTCCCTCTCAACACCTTAACTCACCTTCTCCCAAACGCACAATTCGCACACACAACGCCACCAACCCCAACCTAAGCTAGCCAACAGATACACACTTGCCATACTCATCGACATCTCCACAGCCCAGCAATACCGCCTAACCAATCCAACTAACACCTCCTCTCCCCAAATCACCCAACAAAACTACTTACCCAAACCCAAAACAACAATCCCACCACAACCCACACACCACTATAAACCACCCCCCAAATCAACATAAACACTCCTGCAACCCTAATCCAACACCCTATAAACAATACCCCAACAACGCCTCCCCCACAATGCCGCCCCCTCTAATTAAAAAACACATCTACCCCTCCAAAAAATCCATCTCACCCCACACAACACCACATTTCCTCCGACCTCTAATTCCAATATCCTCTTCTCATCCCAACCTACGACACACAATCTTCCTCCACCCAAACCCCAACACCTCTCAATAACACCCCACCATAAACAACATTCCCACACCTCCACCACCTACTTGCACGCACCACACAAAGAATAATAGCACCCCCCCACAACATATCCCTCCCACCACACACAAGGTTGTGGTGTAAGGTGGTTTGTTTTTGTAAGTTCTGCGTTTTGTTGATTGTAATTATTAGAGGTCTATTAGGTTGGCTGAGGAGTGCGGTTAGGAGGGAAGGGGGAGTTGGGTGACTTTAACAATTAAGGAGGTGGTTTTGGTGTTTGTAAAATTTAAGTTTATTATGTTGGTGGCAACATCCAAAATCCACCCCCCACCCCAAACCCACTCCCGCCACCAAACACGCCAACCACCTAACCCCTACATTCACCCCTCCTCCAACTCCCCACCGACATCAATCCAACACCCTCCATATAAACCATTCCGACAAACAGCAATACAACCCACTGACATAACAGCCAACTCCCAACTCTCCCGCCTTACAAACCCACGCAGAACCCAACCCTCTACCCCTCCACACCCCATCCTCCAGAAAACAACCACCACTTCACCCACCTCCCGCAATCACCCATCACCTCAAACCCCAAACCCCAAACCCCTACAAACAATCAACAATTACACACCCTACACAAAAACCTTCCTAAAACAACCAACACAAATCCATACAACAGC <taxon idref="KF683087_Homo_heidelbergensis_400000"/> ACGCCCACCTACTACAGACAGTCAAATACTAAACACCCTACCCGAAGCCTCCAACCCAGCAACCANCCCCCCCCGCATCCCTTAAATCCCACCCGCCCNACCATCACCTCACTCACCAAGAGACACCCGCCAGAAGCAACATACCATCCAAAAAAATCCTCCCCTCAAAGCCAACGAAACGCAAATCCAAAGCCNCCCCTNAGGCAACACCCCACCACCCCACTACACACCTAACCCCTACCAAAATCACCTACCAATTCCGCATNCCACAATAAACCACCCCACNCNAAACCAACCAAATAATCCACTACCCTCTACTTCGCACCNCTCCTACACCAGACGCATTCAACAAACGATTTATACAAACTTCAATCCGTCCGAACACACTAATCCCCTACCAAACACCTNTNNGAAACAGTAAAAAAACCTCCACAGTCACCTGACCGATCAAAAACCCACACATCCAACACTCCTTACACCGACTATAACACAACACAACCATCCAAAAAATAGCCTCACTTTATTTTNATTCACAACCACCCCACAAATCCACAAAAAACATACCCCCAACGCGACCTGCAGCTCAACAACTCCCCCCCACCCCCTCCCCCGCACCCCACAACTATCCAAAAAGTATAACCACCCACCCTCAGCATCCTTANNNNGCCCTAACTACCACTAAACAACCAATACACATACCTTACAGCGACCTATCCCCCCTCCACTATAACCCAAACCACACTCCAATCAACTCCTGGTCCACCACCACANCCCACGTATTAGGCCAGATAACCTCAAGCCCCTACCACACCCCGCAATTCTCAGCCTCCAATCTAACTCGCACAGCTCCACCACAACGTCATCACGCTCCTAAAACNCCCCCCCCNCAAACCTACACACACCTCTATTTCCAACCAACTTTATCCCAAAAATACATGCATGAATCCAGTCGAACTATAAAACACAAATCCCTCACCTCCCCCAATCACCACCACTGAATTAGCACAATTTTCCATCGTCTAAACAAACCAACCGCCTNTCCCTCAAAATATCCAACCTCACCACACCCACACCCACTCTCACCCATATCCAACTCCACAGCATCGCTCTACCAATCAATACACTTAAAAAAATCATAACCTGGAACAAAAACCACGGAATACNACCCACAACACAATAGATAGAATAACTTCTCAAGTCCTTTCCCACTCTCCCACGCCTCAACAAAATTTCCACTGAAATCATCACCCCACNCCCACACCTCAACGCCTCCTCCAATCTAGCACCACCCCCAACCCCCATCAACAAACCGACTCTCTAAACATACCTTAATAAACCACAATCCAGCAAATATCATACACTCTTAAAGACCCACTACTAACCTTGCCCAAATCAACTAAGCATCAGGCAATTCANCNANNNACTAACCCCAAAAATATCCATCAAGCAAAACTCACAGAAAGACTATTAGCAACGGCATGCTACTCCACACACCAAGCTATCTAGCCCCATCCCCAATCCAAAACAACAAAGACACCTNAANNNNNNNNACTTTCATCCCACGTCATAACCAATACACGCCCAANCNGTACTCTGTATCACCCAAACATACTCNAATTCACCCACTAAACACACACTCTTACCACGCATACCAAAAATTCTNNNTCCCATATAGTCAACTCCACACCTTATAACCCGCCCAAGCCGATCTTAAACCAGCAAGCCACCAGCCCACGATCCCCANNNNNNNACCAACACAAACTAAAACACACCCAATCGACCACGACATTCAATTCCAATCACTCCCCATCCNNNNNNGCAACCCGATCAACACACACAACAANAACCACCTTAAACCACAATAAGTTATAGTCTTCCAACAGCCACCCCTCCCCCCAACTACACCCATCCTTAATCCTCCCCTAAATTTACACCTCCACCCACGTTATGTAATGTCCCTAAGTACCCATAACCCCACAAAATTATAAAACCCCAAACCT CACCCCTACCCCCTCCAGTCAATCCCAATTAATCCTACAAACAAATTAAAATGACCAACCCACATGCTGAAANNACACAGCCTCATTAAATCCATAAAAATCACTACCAACAAAAAAAGCTACTCACCCCCCCACTTGTTCAACTTCCAAGACACAACACCCATCACCATCACACACAGAAACCAATAAAAGAACCAACATACCACCCCATTCCCCGATTCACCCCATCCCACTCCCCAACCCAAATCACACCACGACGCCACTAGAAAAACCCTAACCAATCATAACACAAACATTCCCACATCCCGTCCCAACCGAACGCACACCACCCAACCTCACCAATCTCCCACAACTAACTCTCAAAACCACTCAAAATCAATTAAGATTCACCAACTACTCACCCTGAAATCAACAAGCCTTAACCATTCCCAAACACTCCTAACAACATAACCCCGAAACAAGCTACTACCCACCAAACTCCACCACCCCACTCACCCATACAAACCAACACCACCCTCCACCTAATATACAAATTAATAACCTCCCACCTTCAGAACTGAACACCAATCTCACAACCAACACACCTCATCAGAACACCCCTCCAACACAAACTCGCACACCTCCACCCCCCTCGTCTACGCNNNNNACATCATCCCTCCCTCTCGACACCTTAACTCACCTTTTCCCAAACGCACAATTCACACACACAACGCCACCAACCCCAACCTAAGCTAACCAACAGATACACACTTACCATGCTCACCAACATCTCCACAACCCGGCAATACCGCTTAACCAATCCAACTAACACCTCCTCCCCCCAAATCACCCAACAAAACTACTTACCCAAACCCAAAACAACAACCCCACCACNACCCNCACACCACTACAAACCACCCCCCAAATCAACATAAACACTCCTGCAACCNTAATCCAACACCCTATAAGCAATACCCCAACAACGCCTCCCCCACAATACTGCCCCCTCCAATTAAAAAACACATCTACCCCTCCAAAAAACCCATCCCACCCCACACAACACCACATTTCCTCCGACCTCTAATTCCGATATCCTCCTCTCATCCCAACCTACGACACGCAATCTTCCTCCACCCAAACCCCAACACCTCTCAGTAACACCCCACCATAAACAACATTCCCACACCTCCACCACCTACTTACACGTACCACACGAAAAATAACAGCACCCCCCCATAACACATCCCTCNCACCACACACAAGATTGTGGTGTAAGGTGGTTTGCTTTTGTAAGTTTTGTGTTTTGTTGATTGTAATTATTGGAGGTTTATTAGGTTGGTTGAGGNGTGCGGTTAGGAGGGAAGGGGGAGTTGGGTGACTTTGATAACTAAGGAGGTGGTTTTGGTGTTTGTAGAATTTAAGTTTATTATGTTGGTGGCAACATCCAAAATCCANCCCCCACCCCAAGCCCACTCCCGCCACCAAACACGCCAACCACCTAACCTCCACATTCACCCCTCCTCCAACTCCCCACCGACATCAATCCAACACCCTTCGTATAAACCACTCCAACAAACACCAATACAACCCACTGACATAACAACTAACTCCCAACTCTCTCGCCTTACAAACCCACGCAAGACCCAACCCTCTACCCCTCCACACCCCATCCTCCAGAAAACAATCACCACTTCACCCACCTCCCGCAATCACCCATCACCTCAAACCTCAAACTCCGAACCCTTACAAACAATCAACAATTACACACTCTACACAAAAACCTTCCTAAAACAACCAACACAAATCCATACAACAAC <taxon idref="NC_013993_Homo_sp_Altai_40000"/> ACGCCCACCTACTACAAACAGTCAAATACTAAACACCCTACCCGAAACCTCCAACCCAGCAACCAACCCCCCCCGCATCCCTTAAACCCCACCCATCCCACCATTACCTTACTCACCAAGAAACACCCGCCAGAAGCAACATACCATCCAAAAAAATCCTCCCCTCAAAGCCAACAAAACGCAAATCTAAAGCTACCCCTTAGGCAACACCCCACCGCCCCACTACACACTTAACCCCTACCAAAACCACCTACCAATTCCACATGCCGCAATAAACCACCCCACACCAAACCAACCAAATAATCCACTACCCTCTACTTCGCACCCCTCCTACACCAGACGCATTCAGCAAACGACTTATACAAACTCCAATCCGTCCGAACACACTAATCCCCTACCAAACACTTCTACAAAACAGTAAAAAAACCTCCACAGTCACCTGACCGCTCAAAAACCCACACATTCAACACCCCCTACACCGACTATAACACAACACAACCACCCAAAAAATAGCCTCACTTTATTTTCATTCACAACCACCCCACAAATCCACGAAAAACATACCCCCAACGCGACCTGCAGCTTAACAACTCCCCCCCACCCCCTCCCCCGCACCCCACAGCTATCCAAAAAGTATAACCACTCACCCTCAGCATCCTTAAACAGCCCTAACTACCACTAAACAACCAATACACATACCTTACAGCGACCTATCCCCCCTCCACTATAACCCAAACCACACTCCAACCAACTCCTGGTCCACCACCACACCTCACGTATTAGGCCAAATAACCTCAAGCCCCTACCACACCCCACAATCCTCAGCCTCCAATCTAACTCACACAGCTCCACCACAACGTCATCACGCTCCTAGAACTCCCCCCCTACAAACCTACACACATCTCTATTTCCAACCAACCTTATCCCAAAAATACACGCATGAATCCAGTCGAACTATAAAACACAAATCCCTCACCTCCCCCAATCACCACCACTGAATTAACACAATTTTCCAGCGTCTAAACAAACCAACCGCCTATCCCTCAAAATATCCAGCCTCATCACACCCACACCCACTCTCACCCATATCCAACTCCACAGCATCGCTCTACCAATCAATACACTTAAAAAAATCATAACCTAGAACAAAAACCACGGAATACCGCCCACAACACAATAGATAGAACAACCTCTCAAGTCCTTTCCCACTCTCCCACGCCTCAACAAAATCTCCACTGAAACCATCACCCCACTCCCACACCTCAACGCCTCCTCCAATCTAGCACCGCCCCCAACCCCCATCAACAAACCGACTCTCTGAACGTACCTTAATAAACCACAATCCAACAAATATCATACACTCTTAAAGACCCACTACTAACCTTGCCCAAATCAACTAAGCATCAGGCAATTCAGCCATCCACTAACCCCAAAAATATCCATCAAGTAAAACTCACAGAAAGACTATTAGCAACGGCATGCTACTCCACACACCAAGCTATCTAGCCCCATCCCCAATCCAAAACAACAAAGACACCTGAACATTAAACACTTTCACCCCGCGTCATAACCAATACACGCCCAAGCAGTACTCTGTATCACCCAAACATACTCTAATTCACCCACTAAACACACACTCTTACCACGCATACCAAAAATTCTCTATCCCATATAGTCAACTCCACACCTTATAACCCGCCCAAGCCAATCTTAAACCAGCAAGCCACCAGCCCACGATCCCCACCCAACAACCAACACAAACTAAAACACACCCAATCGACTATGACATTCAATTCCAATCACTCCCCATCCTAAAGCGCAATCCGATCAACACACACAACAAGAACCACCTTAAACCACAATAAGTTATAGCCTTCCAACAGCCACCCCTCCCCCCAACTACACCCATCCTTAATCCTCCCCTAAATTTACACCTCCACCCACATTATGTAATGTCCCTAAGTACCCATAACTCCACAAAATTATAAAACCCCAAACCT CACCCCTACTCCCTCCAATCAATCCCAATTAATCCTACAAACAAATTGAAATGACCAACCCACATGCTGAAAGAACACAGCCTCATTAAATCCATAAAAATCACTACCAACAAAAAAAGCTATTCACCCCCCCACTTGTTCAACTTCCAAGACACAACACCCATCACCACCACACACAGAAACCAATAAAAGAACCAACATACCACCCCATTCCCCGATTCACCCCACCCCACTTCCCAACCCAAAGCACACCACGACACCACTAAAAAAACCCTAACCGATCATAACACAAACATTCCCACATCCCGTCCCAACCGAACGCACACCACTCAACCTCACCAATCTCCCACAACTAACTCTCAGAACCACCCAAAATCAATTAAGATTCACCAACTACTCACCCTGAAATCAACAAACCTTAACCATTCCCGAACACCCCTAGCAACATAACCCCGAAACAAGCTACTACCCACCAAACTCCACCACCCCACTCACCCATACAAACCAACACCACCCTCCACCTAATATACAAATTAATAACCTCCCACCTTCAGAACTGAACACCAATCTCATAACCAACACACCTCATCAGAACACCCCTCCAACACAAACTCGCACACCTCCACCCCCCTCGTCTACGCTTACCACACCATCCCTCCCTCTCGACACCTTAACTCACCTTTCCCCAAACGCACAATTCACACACACAACACCACCAACCCCAACCTAAGCTAACCAACAGGTACACACTTACCATGCTCACCAACATCTCCACAACCCAGCAATACCGCTTAGCCAATCCAACTAACACCTCCTCCCCCCAAATCACCCGACAAAACTACTTACCCAAACCCAAAACAACAACCCCACCACAACCCGCACACCACTACAAGCCACCCCCCAAATCAACATAAACACTCCTGCAACCCTAATCCAACACCCTATAAGCAATACCCCAACAACGCCTCCCCCACGATACCACCCCCTCTAATTAAAAAACACGCCTACCCCTCCAAAAAACCCATCTCACCCCACACAACACCACATTTCCTCCGACCTCTAATTCCGACATCCTCCTCTCATCTCAACCTACGACACACAATCTTCCTCCACCCAAACCCCAACACCTCTCAGTAACACCCCACCATAAACAACACTCCCACACTTCCACCACCTACTTACACGCACCACACGAAGAATAACAGCACCCCCCCATAACACATCCCTCCCACCACACACAAGGTCGTGGTGTAAGGTGGTTTGCTTTTGTAAGTTTTGTGTTTTGTTGATTGTAATTATTGGAGGTTTATTAGGTTGGTTGAGGAGTGCGGTTAGGAGGGAAGGGGGAGTTGGGTGACTTTGATAACTAAGGAGGTGGTTTTGGTGTTCGTAAAATTTAAATTTATTATGTTGGTGGCAACATCCAAAATCCATCCCCCACCCCAAGCCCACTCCCACCACCAAACACGCCAACCACCTAACCTCCACATCCACCCCTCCTCCAACTCCCCACCAACATCAATCCAACACCCTTCGTATAAACCACTCCAACAAACACCAATACAACCCACTGACATAACAGCTAACTCCCAACTCTCCCGCCTTACAAACCCACGCAAGACCCAACCCTCTACTCCTCCACACCCCATCCTCCAGAAAACAATCACCACTTCACCCACCTCCCGCAGTCACCCATCACCTCAAACCTCAAACCTCGAACCCTTACAAACAATCAACAATTACACACTCTACACAAAAATCTTCCTAAAACAACCAACACAAATCCATACAACAAC <taxon idref="NC_001643_Pan_troglodytes_0"/> ACGCCCACCTACCACAAACAGACAAATACCAAACATCCTATTCGAAGCCTCCAACCTAACAACCTACTCCCCCCACACCCTCCAAACCCCACCCACTTCACCATTACCCCACTCACCAAGAAACGCCCACTAAAAACAACACACTACTCAGAGAAATCCCTCTCTCAAAGCCAACGAAACGCAAATCTAAAGCCATCCCTTAAATAACACTTCGTCACCTCATCACACACTTAACCCTTACCAAAACTTCCTACCGATTCCATATACCGCAATAAATCATCCCGCACCAAACCAACCAAACGATCCACTACCCCCTACTTCACACCCCTCCTACGCTAGACACATCCAACAAATAATTCACACAAACCCCAACCCACTCAAATGCATCGATCCCCCACCAAACACTTCTACAAAATAAAGAAAAAACCTCTATAATCACCCAACCACCCAAAAACTTATACACCAAGCACTCCCTACGCTAACCACAACACAACACAACCACCCACAAAACAATCTCACTTTACTCCCATTCATGACCACCCCACAAATCCACGAAAATCATACCCCCAACACAATCCACAATCCAACAATTCCCCCCCACCCTCTCCTCCACACCCCATAATCATTCAAAAAACATAACCCCCTACCCTCAGTACCCCCAAACAGCCCCAACTACCATTAAACAACTAATACGCACATCTTGTAACAACCCATTCCCCTCCCACTACAACCCAAGTTACACTCCGATCGATTCCCGACCCACCACCGCGCTTCATATATCAAACCGAATAACCTCAGACCGTTACCACACCCCATGACCCTCAACTCCCAATTTAATTCGCACAACCCCACCACAACATCACCACATTCCCAAGATTCCCTCCCCACGAACTTATACACATTCCCATTTTCAACCAATCCTATTCCAAAAATATACGTATAAATCCAGTCGAACTATAAGACACCACTCCCTCACTTTTCCCAACCACTATCACTGAATCAACACAGTCTCCCATCACCTAAACAAACCGACCACCCACCCCCTAAAATACCCAACCTCACCACACTCACACTCACATCCGCTCACACCCAGCCTCATGGCATCGCCCTACCAATCAACACATCCGAAAAAATCGTAACTTAAAACAAAAGCCACGAAATACCACCCACAACACAATAGATAGAATAATTTCTCAAATTCTCCTCCATCTCCCTACACCTCAACAAAATTTTTACCGAAACCATCGCCCCACTTCAACGTCTCAACGCCCCCTTTAACCTAATACCACCCCCGACCCCCACCAATAAATTAACTCTTCAGCCATACCTTAATAAATTACAATTCAACAAACATCACACACTCCCAAAAACCCACAACTAACCTTACCCAAACTAACTAAACACTAGGCAATCCAACCATCCACGAATCCCAAAAATATCTACCAAACAAAACCTACAAAAAGACTGTTGGCAACGGCATACTACTCCACACACCAAACTACCTAGCCTTATCCCCAATCCAAAATAGCAAAAATACCTAAACATCAAACACTTTCACTTTGTACCACAACCAATACACGTCCAAACAACACTCTGTATCACCCAGACATACTCCAATCCATTCACTAAACACATACTCTTACCACGCATACCAAAAATCTACTACTCCATACAGTTAGCCCCACACCTTATAGCCCGCCCAAGCCAATCCCAAACCAACAAGCCGCCAACCCGCAACCCCCAAACAACAATCAGCATAAACTTAAACACACCCAACCAATCATGATTTTCAATTCTAATTATCCCCCACTCCGAAACGCAATTCAATCAACACACATAACAAAAATTACTCCAAATCACAATAAGTTGTAATTTTCCAACAATCACTTCTCTCCCCAACTACACCCACCCTTAATCCTCCCCCAAATCCACATCCCTACCCACACCATACAATATCTTCAAATACCCATAACTCTACAAGATCACAAAACCCCAAATCT CATCCCTACCCCCCCCAATCAACCCCAATCAATCCAGCATACAAGCCAAAACAACCAATTCACACCCCAAAAAGACACAGCTTTATTAAATCCATAAAAATCACAATCAACAAAAAAAGCCACCCACCTTCCCACTTACCCAACTTCCAAAATAAAATACTCATCACCATCACACACAGAAACCGATAAAAAAACTAATATACCACTCCATCCCTCAATTCATCCCACCTCGCCCCCCAATCCAAATTATACCACAACGCCACCAAAAAAACCCCGATCCACCATAACGCAGATATTCCCACATCCCGTCCCAGTCAAACGCATACCACTCAACCCCACCAACTCCCCACAATCAACTTACAAAACCACCCAAAAGCGGTCGAAACTCACCAACTACTCACTTCGAGATTAACAAATCTCAACCACCCCCAAATACTCCCGGCAATACAACCCCGAAACAAGCTACTACCCACCAAACTCCACCACCCCATCCACCCATACAAACCAACATTACCCTCCATCCAATATACAAACTAACGACCTCCCACTCTTCAGACCGAACACCAATCTCACAACCAACACGCCCCGTCAAAACACCCCTTCAGCACAAACTCATACACCCCTACCTTTCCTACCCACGTTCACCACATCATCCCCCCCTCTCAACACCTCGACTCACCTCTCTCCAAACACACAATTCGCACAAACAACACCGCTAACTCCAATCCAAGCTAACCAACAAATACACCCCCACCACATCCATTAACACCTCCACACCCCAACAATACTACTCAGCCAATCCAACCAACATCTCTTTTTCACAAATCACCCAATAAAACCATTTACTTAAACCCAAAACAATAACTCCACCACAACTCTTACACCACCACAAACCACCCCCCAAGTCAACATCGACACTCCCACAACCCCAATCCAACGCCCTACAAACAATACTCCAACAACTCCCCCTCCACAACACCACTTCCCTTGACTAAAAAACACACCTACCCCTGCAAAAAACCCATCCCACCCCACTCAACACCACATTTCCCCTGACCCCCAACCCCAATATCCACCCCTCACCCTGATCTACACTACATAATCTCCCTCCATTCAGATCTCAATACACTTCAATAACACCTCACCGCAAACAATATCCTTACACCTCTACCGCCTACTTACACACATTACGCAAGAAATAATAGCACCTCTCCACAACGCATTCCTTCCTCCACACACAAGATTATAGTGTAGAGTGGTTTGTTCTTGTAAGTTTTATGTCCTGTTGATTATAGTTATTGGAAGTTTGTTGTGTTGGTTGAGGAGTGTGTTTAAAGGGGAAAGAGAAGTTGGGTGATTTCGATAATTAGGGAGGTGGTTTTGGCATTTGTGAAATTTGAGTTTACTGTGTTGGTGGCGACATCAAAAATTCATCCCCCACCTCAAGCCCATCCCCACTATCAAACATACCAACCACCCGGCCCCCACACTTGCCCCCCTCCCAATTCCCCACCCATATCCATCCAACACTCTCCGCACAAACTGCTCCAACAACCAACAATACAGCTCACCAACGCGACAACCAACCTCTAACCCCCTCACCCCACAAATTCACACAAAATCCAACCCCCCATCCCCCCACATCTCACTCCTCAGAAAACAACCACTACCTCATCCACCACCTACGACTATCCACCACCCCAAACCCCAAATCACAAACTCCCACAAACAATCAACAGTCACACACCCCACACAAAAACCCCCCCAAAACAACCAACACAAACCTACACAATAAC <taxon idref="NC_001644_Pan_paniscus_0"/> ACGTCCACCTATCACAAACAGACAAACACCAAACACCCTACCCAAAGTCTCCAACCCAACAACCTATTCCTTCCACACGCCCCAAACTCCGCCCACTTCACCATTACCTCACTCACCAAAAAACGCCCACTAAAAACAACACACTACTTAAAGAAATCCCTCTCTCAAAACCAACGAAACGCAAATCTAAAACCGTCCCTTAAATAACACCCCATCACATCACTACACACTTAACCCTTACCAAAACTGCCTACCGACTCCGTATACCGCAATAAATCATCCCACACCAAACCAACCAAACGATTCACTACCCCCTACTTCACACCCCTCCCACACTAGACACATCCAACAAATAATTCACACAAACCCCAATCCACTCAAACGCGTCAATCCCCCACCAAACACCTCTACAAAATAATGAAAATACCTCCATAATCACCCAACCACCCAAAAACCCATACAACAAGCACTCCCTACGCTAACCACAACACAACACAACCACCCACAAAATAACCTCACTTTATTTCCATTCACGACCACCCCACAAATCCACGAAAATTACACCCCCAACACAACCCGCAATCCAACAATTCCTCCCCACCCTCTCCTCCCCACCCCGCAATTACTTAAAAAATATAATCCCCTACCCTCAATACCCTCAAGCAGCCCCAACTACCATTAAACAACCAATATGCACATCTTATAACAACCTATCCCCTTCTCACTGCAACTCAAATCACACCCCGATCGATTCCCGACCTACCACCACACTTCATATATCAAACCCAATGACCTCAAACTGTTACCACACCCCGCGACCCTCAACTCCCAACTTAATTCACACAACTCCACCATAACATCACCACATTCCCAAAATTCCCTCCCCATGAACTTATACACATTCCCATCTTCAACCAATCCTATTCAAAAAACACACGTATAAATTCAGTTGAACTATAAAACACAACTCTCTCACTTTTCCCAACCGCTATCACTGAATCAACACAGCCTCCCGTCACTTAAACAAACCAACCATCCACCCCCCAAAATACCCAACCTCACCATACTCACACTCACATCCACTCACACCCAACCTCGTAGCATCGCCTTACCAATCAACACACCCAGAAAAATCATAACTTAAAACAAAAGCCACGGAGTACCACCCGCAACGCAATAGATAGAATAACCTCTCAAATTCTTCTCCATCTCCCCACGCCTCAACAAAATTTTTACCGAAACCATCGCCCCACTTCTATATCTTAACGCCCCCTTTAACCTAATACCACCCCCAACCCCCACCAATAAACCAACTCTTCGGCCATACCTTAATAAATTACAATCCAACAAACATCACACACTCCCAAAAACTCACAACTAACCTTACCCAGACCAACTAAACACTAAGCAATCCAACCATCTACTAATTCCAAAAACATCTACCAAACAAAACCTACAAAAAGACTGTTGGCAACGGCATGCTACTCCACACACCAAGCTACCTAGTCCTATCCCCAATCCAAAATAGCAAAAATACCTAAACATCAAACATTTTCATTTCATATCACAACCAATACACGTCCAAACAACACTCTGTATCACCCAGACATACTCCAATCCATCCACTAAACACATACTCTTACCACGCATACCAAAAATTTACCACTCCATACAGTTAACCTCACACCTTATAGCCCGCCCAAGCCAATTTTAAACCAGCAAGCCACCAACTCACAACCCCCAAGCAATAATCAACATAAACTTAAGCACACCCAACCAATCACAATTCTCAATTCTAATTATCCCCCACTCCGAAACACAATTCAATCAATACACATAACAAAAATTACTCCAAATCACAATAAACTATAATCTCCCAACAACCACTTCTCTCCCCAACTACACCCGCCCTTAATCCTCCCCCAAATCCACATCCCTACCCACGCCATACAATATCCCCAAATACCCATAACTCTACAAAATTACAAAACCCCAAATCT CATCCCTACCTCCCCCAATCAACCCCAATCAATCCAACAAACAAACCAAAACAACCAACTCACACCCCAAAAGGACACAGTTTTATTAAATCCATAAAAACCACAATTAACAAAAAAAACCACCCACCTCCCCACTTACCCAACTTCCGAAATAAAATACTCGTCACCATTACACACAGAAATCAATAAAAAAACTAATATACCACTCCATCCCTCAATTCACCCCACCTCATCCCCCAACCCAAATCATACCACAATGCCACCAAAAAAACCCCAACCCACCATAACACAGATATCCCCACACCCCACCCCAGTCAAACGCATACCACTCAACCCCACCGACCCCCCACAATCAGCCCACAAAACCACCCAAAAGCGATCGAAAATCACCAACTACTCACTTCAAGATTAACAAACCTCAACCACTCCCAAATACTCCCGACAACACAACCCCGAAACAAGCTACTACCCACCAAACTCCACCACCCCACTTACCCATACAAACCAACATCACCCTCCATCCAATATACAAACTAACAACCCCCCACCCTTCAAACCGAACACCAATTCCACAACCAATACGCCCCGTCAAAACACCCCTTCAACACAAACTCATACACCCCCACCTTTTCTACCCACGTTCACCACATCATCCCCCCCTCTCAACATCTTGACTCGCCTCTCTCCAAACACACAATTCACGCAAACAACGCCACTAACCTCAATCCAAGCTAACCAACAAACACACACCCACCATATCCATCAACACCTTCACACCTCAAAAATACTACTCAGCCAATCCAACCAACATCCCTCTTTCACAAACCACCCAACCAAACCATTTACTTAAACCCAAAACAACAACTCCACCACAACTCCTACACCACCACAAACCACCCCCCAAATCAACATCGACACTCCCACAACCCTAATCCAACACCCTATAAACAACACTCCAACAACGCCCCTTTCACAATACCACTCCCCCTAACTAAAAAACACACCCACCCCTCCAAAAAATCCATCCCACCCCATACAACACCACATTTCCCCCAACCCCCAATCCCAATATCCACCTCTCACCCTAATCTACAGCACATAATCTCCCTCCATTCAGATCTCGACACACTTCAATAACACCTCACCACAAACAATATCCTTGCACTCCTACCACCTACTCACACGCACTACGCAAAAAACAATAGCACCTCTCCACAATACATTCCTTCCTCCACACACAAGATTATAGTGTAAAGTGGTTTGTTTTTGCAAGTTTTATGTTCTGTTGATTATAGTTATTGGAAGTTTGTTGGGTTGGCTGAGGAGTGTGTTTAGAGAGGAAAGGGAAGTTGAGTAATTTCGATAATTAGGGGGATGGTTTTGGTGTCTGTGGAATTTGAATTTACTATGTTGGTGGCAACACCAAAAATTCATCCCCCACTTCAAACCCATCCCCACTACCAAACATACCAACCACCCAGCCCTCACACTTACCCCTCTCCCAATCCCCCACCTACATCCATCCAACACTCCCCGCACAAACTGCTCCAACAACCAGCAATACAGCCCACCAACCCAACAACCAACCTCTAACCCCCTCACCTCACAAATTCACACAAAATCCAACCCCCCATCCCCCCACATCTTACTCCCCAAAAAATAACCACTACTCCACCCACCACCTGCGGTTATCCATCACCCCAAATTCCAAATCCCAAACTCCCACAAACAATCAACAGTCACACACCTCACACAAAAACCCCCCCGAAACAGCCAACACAAATCCACACAACAAC

<patterns id="patterns" from="1" strip="false">

<birthDeathSerialSampling id="bdss" units="years" hasFinalSample="false"> <birthRate> <parameter id="bdss.birthRate" value="2.1E-6" lower="0.0"/> </birthRate> <relativeDeathRate> <parameter id="bdss.relativeDeathRate" value="0.5" lower="0.1" upper="1.0"/> </relativeDeathRate> <parameter id="bdss.psi" value="2.5E-6" lower="0.0"/> <parameter id="bdss.origin" value="6432570.0" lower="0.0"/> </birthDeathSerialSampling>

<constantSize id="initialDemo" units="years"> <populationSize> <parameter id="initialDemo.popSize" value="100.0"/> </populationSize> </constantSize>

<newick id="startingTree" usingDates="true"> ((NC_001643_Pan_troglodytes_0:1793818.6516222407,NC_001644_Pan_paniscus_0:1793818.6516222407):4638745.611752797,((NC_013993_Homo_sp_Altai_40000:717484.0474401505,KF683087_Homo_heidelbergensis_400000:357484.0474401505):278039.3405354583,(FM865409_Neandertal_38790:394799.4259188975,KF672800_Turkana_Kenya_L0a_0:433589.4259188973):601933.9620567113):5397040.875399429);

<treeModel id="treeModel"> <tree idref="startingTree"/> <rootHeight> <parameter id="treeModel.rootHeight"/> </rootHeight> <nodeHeights internalNodes="true"> <parameter id="treeModel.internalNodeHeights"/> </nodeHeights> <nodeHeights internalNodes="true" rootNode="true"> <parameter id="treeModel.allInternalNodeHeights"/> </nodeHeights>

<leafHeight taxon="FM865409_Neandertal_38790"> <parameter id="age(FM865409_Neandertal_38790)"/> </leafHeight> <leafHeight taxon="KF672800_Turkana_Kenya_L0a_0"> <parameter id="age(KF672800_Turkana_Kenya_L0a_0)"/> </leafHeight> <leafHeight taxon="KF683087_Homo_heidelbergensis_400000"> <parameter id="age(KF683087_Homo_heidelbergensis_400000)"/> </leafHeight> <leafHeight taxon="NC_013993_Homo_sp_Altai_40000"> <parameter id="age(NC_013993_Homo_sp_Altai_40000)"/> </leafHeight> <leafHeight taxon="NC_001643_Pan_troglodytes_0"> <parameter id="age(NC_001643_Pan_troglodytes_0)"/> </leafHeight> <leafHeight taxon="NC_001644_Pan_paniscus_0"> <parameter id="age(NC_001644_Pan_paniscus_0)"/> </leafHeight>

</treeModel>

<tmrcaStatistic id="tmrca(all)" includeStem="false"> <treeModel idref="treeModel"/> </tmrcaStatistic>

<speciationLikelihood id="speciation"> <birthDeathSerialSampling idref="bdss"/> <speciesTree> <treeModel idref="treeModel"/> </speciesTree> </speciationLikelihood>

<strictClockBranchRates id="branchRates"> <parameter id="clock.rate" value="1.0E-8" lower="0.0"/> </strictClockBranchRates>

<gtrModel id="gtr"> <frequencyModel dataType="nucleotide"> <parameter id="gtr.frequencies" dimension="4"/> </frequencyModel> <rateAC> <parameter id="trn.transversion" value="1.0" lower="0.0"/> </rateAC> <rateAG> <parameter id="trn.ag" value="1.0" lower="0.0"/> </rateAG> <rateAT> <parameter idref="trn.transversion"/> </rateAT> <rateCG> <parameter idref="trn.transversion"/> </rateCG> <rateGT> <parameter idref="trn.transversion"/> </rateGT> </gtrModel>

<siteModel id="siteModel"> <substitutionModel> <gtrModel idref="gtr"/> </substitutionModel> <gammaShape gammaCategories="6"> <parameter id="alpha" value="0.5" lower="0.0"/> </gammaShape> </siteModel>

<treeLikelihood id="treeLikelihood" useAmbiguities="false" stateTagName="states"> <treeModel idref="treeModel"/> <siteModel idref="siteModel"/> <strictClockBranchRates idref="branchRates"/> </treeLikelihood>

<scaleOperator scaleFactor="0.5" weight="1"> <parameter idref="trn.transversion"/> </scaleOperator> <scaleOperator scaleFactor="0.5" weight="1"> <parameter idref="trn.ag"/> </scaleOperator> <scaleOperator scaleFactor="0.75" weight="0.1"> </scaleOperator> <scaleOperator scaleFactor="0.75" weight="3"> <parameter idref="clock.rate"/> </scaleOperator> <subtreeSlide size="650000.0" gaussian="true" weight="15"> <treeModel idref="treeModel"/> </subtreeSlide> <narrowExchange weight="15"> <treeModel idref="treeModel"/> </narrowExchange> <wideExchange weight="3"> <treeModel idref="treeModel"/> </wideExchange> <wilsonBalding weight="3"> <treeModel idref="treeModel"/> </wilsonBalding> <scaleOperator scaleFactor="0.75" weight="3"> <parameter idref="treeModel.rootHeight"/> </scaleOperator> <uniformOperator weight="30"> <parameter idref="treeModel.internalNodeHeights"/> </uniformOperator> <scaleOperator scaleFactor="0.75" weight="1"> <parameter idref="bdss.birthRate"/> </scaleOperator> <scaleOperator scaleFactor="0.75" weight="1"> <parameter idref="bdss.relativeDeathRate"/> </scaleOperator> <scaleOperator scaleFactor="0.75" weight="1"> <parameter idref="bdss.psi"/> </scaleOperator> <scaleOperator scaleFactor="0.75" weight="1"> <parameter idref="bdss.origin"/> </scaleOperator> <upDownOperator scaleFactor="0.75" weight="3"> <up> <parameter idref="clock.rate"/> </up> <parameter idref="treeModel.allInternalNodeHeights"/> </upDownOperator> <randomWalkOperator windowSize="1.0" weight="1"> <parameter idref="age(FM865409_Neandertal_38790)"/> </randomWalkOperator> <randomWalkOperator windowSize="1.0" weight="1"> <parameter idref="age(KF672800_Turkana_Kenya_L0a_0)"/> </randomWalkOperator> <randomWalkOperator windowSize="1.0" weight="1"> <parameter idref="age(KF683087_Homo_heidelbergensis_400000)"/> </randomWalkOperator> <randomWalkOperator windowSize="1.0" weight="1"> <parameter idref="age(NC_013993_Homo_sp_Altai_40000)"/> </randomWalkOperator> <randomWalkOperator windowSize="1.0" weight="1"> <parameter idref="age(NC_001643_Pan_troglodytes_0)"/> </randomWalkOperator> <randomWalkOperator windowSize="1.0" weight="1"> <parameter idref="age(NC_001644_Pan_paniscus_0)"/> </randomWalkOperator>

<mcmc id="mcmc" chainLength="50000000" autoOptimize="true" operatorAnalysis="6Yule_3rd_Codon_Trn+G6_Strict_BDSS.ops.txt"> <normalPrior mean="6500000.0" stdev="250000.0"> <statistic idref="tmrca(all)"/> </normalPrior> <gammaPrior shape="0.05" scale="10.0" offset="0.0"> <parameter idref="trn.transversion"/> </gammaPrior> <gammaPrior shape="0.05" scale="10.0" offset="0.0"> <parameter idref="trn.ag"/> </gammaPrior> <exponentialPrior mean="0.5" offset="0.0"> </exponentialPrior> <uniformPrior lower="1.0E-11" upper="1.0E-5"> <parameter idref="clock.rate"/> </uniformPrior> <uniformPrior lower="0.0" upper="100000.0"> <parameter idref="bdss.birthRate"/> </uniformPrior> <uniformPrior lower="0.0" upper="1.0"> <parameter idref="bdss.relativeDeathRate"/> </uniformPrior> <uniformPrior lower="0.0" upper="100.0"> <parameter idref="bdss.psi"/> </uniformPrior> <uniformPrior lower="0.0" upper="1.0E100"> <parameter idref="bdss.origin"/> </uniformPrior> <normalPrior mean="38790.0" stdev="250.0"> <parameter idref="age(FM865409_Neandertal_38790)"/> </normalPrior> <uniformPrior lower="0.0" upper="1.0E100"> <parameter idref="age(KF672800_Turkana_Kenya_L0a_0)"/> </uniformPrior> <logNormalPrior mean="11.91839057" stdev="0.67" offset="200000.0" meanInRealSpace="false"> <parameter idref="age(KF683087_Homo_heidelbergensis_400000)"/> </logNormalPrior> <uniformPrior lower="30000.0" upper="50000.0"> <parameter idref="age(NC_013993_Homo_sp_Altai_40000)"/> </uniformPrior> <uniformPrior lower="0.0" upper="1.0E100"> <parameter idref="age(NC_001643_Pan_troglodytes_0)"/> </uniformPrior> <uniformPrior lower="0.0" upper="1.0E100"> <parameter idref="age(NC_001644_Pan_paniscus_0)"/> </uniformPrior> <speciationLikelihood idref="speciation"/> <treeLikelihood idref="treeLikelihood"/>

<log id="screenLog" logEvery="1000"> <column label="Posterior" dp="4" width="12"> <column label="Prior" dp="4" width="12"> <column label="Likelihood" dp="4" width="12"> <likelihood idref="likelihood"/> <column label="rootHeight" sf="6" width="12"> <parameter idref="treeModel.rootHeight"/> <column label="clock.rate" sf="6" width="12"> <parameter idref="clock.rate"/>

<log id="fileLog" logEvery="1000" fileName="6Yule_3rd_Codon_Trn+G6_Strict_BDSS.log.txt" overwrite="false"> <likelihood idref="likelihood"/> <parameter idref="treeModel.rootHeight"/> <tmrcaStatistic idref="tmrca(all)"/> <parameter idref="bdss.birthRate"/> <parameter idref="bdss.relativeDeathRate"/> <parameter idref="bdss.psi"/> <parameter idref="bdss.origin"/> <parameter idref="trn.transversion"/> <parameter idref="trn.ag"/> <parameter idref="clock.rate"/>

<parameter idref="age(FM865409_Neandertal_38790)"/> <parameter idref="age(KF672800_Turkana_Kenya_L0a_0)"/> <parameter idref="age(KF683087_Homo_heidelbergensis_400000)"/> <parameter idref="age(NC_013993_Homo_sp_Altai_40000)"/> <parameter idref="age(NC_001643_Pan_troglodytes_0)"/> <parameter idref="age(NC_001644_Pan_paniscus_0)"/>

<treeLikelihood idref="treeLikelihood"/> <speciationLikelihood idref="speciation"/>

<logTree id="treeFileLog" logEvery="1000" nexusFormat="true" fileName="6Yule_3rd_Codon_Trn+G6_Strict_BDSS.trees.txt" sortTranslationTable="true"> <treeModel idref="treeModel"/> <trait name="rate" tag="rate"> <strictClockBranchRates idref="branchRates"/> </logTree>