<?xml version="1.0" encoding="UTF-8" standalone="no"?><beast beautitemplate='Standard' beautistatus='' namespace="beast.core:beast.evolution.alignment:beast.evolution.tree.coalescent:beast.core.util:beast.evolution.nuc:beast.evolution.operators:beast.evolution.sitemodel:beast.evolution.substitutionmodel:beast.evolution.likelihood" required="" version="2.6">
    <data
id="anthus_aco_sub"
spec="Alignment"
name="alignment">
        <sequence id="seq_61430_aco" spec="Sequence" taxon="61430_aco" totalcount="4" value="ACAGGTTAGAAACTACTCTGTTTTCTGGCTCCTTGTTTAATGCCCTGTCCTATTTTATTGCGAAAATTGTCTGTTTTT"/>
        <sequence id="seq_626029_aco" spec="Sequence" taxon="626029_aco" totalcount="4" value="ACAGGTTAGAAACTACTCTGTTTTCTGGCTGCTTGTTTAATGCCCTCTCCTATTTTATTGTGACGATTGTCTGTTTTT"/>
        <sequence id="seq_630116_aco" spec="Sequence" taxon="630116_aco" totalcount="4" value="ACAGGTTAGAAACTACTCTGTTTTCTGGCTCCTTGTTTAATGCCCTGTCCTATTTTATTGCGAAAATTGTCTGTTTTT"/>
        <sequence id="seq_630210_aco" spec="Sequence" taxon="630210_aco" totalcount="4" value="ACAGGTTAGAAACTACTCTGTTTTCTGGCTCCTTGTTTAATGCCCTGTCCTATTTTATTGTGACAATTGTCTGTTTTT"/>
        <sequence id="seq_B25702_aco" spec="Sequence" taxon="B25702_aco" totalcount="4" value="ACAGGTTAGAAACTACTCTGTTTTCTGGCTCCTTGTTTAATGCCCTGTCCTATTTTATTGTGACAATTGTCTGTTTTT"/>
    </data>

    


    <map name="Uniform" >beast.math.distributions.Uniform</map>
    <map name="Exponential" >beast.math.distributions.Exponential</map>
    <map name="LogNormal" >beast.math.distributions.LogNormalDistributionModel</map>
    <map name="Normal" >beast.math.distributions.Normal</map>
    <map name="Beta" >beast.math.distributions.Beta</map>
    <map name="Gamma" >beast.math.distributions.Gamma</map>
    <map name="LaplaceDistribution" >beast.math.distributions.LaplaceDistribution</map>
    <map name="prior" >beast.math.distributions.Prior</map>
    <map name="InverseGamma" >beast.math.distributions.InverseGamma</map>
    <map name="OneOnX" >beast.math.distributions.OneOnX</map>
    <run id="mcmc" spec="MCMC" chainLength="10000000">
        <state id="state" spec="State" storeEvery="5000">
            <tree id="Tree.t:anthus_aco_sub" spec="beast.evolution.tree.Tree" name="stateNode">
                <taxonset id="TaxonSet.anthus_aco_sub" spec="TaxonSet">
                    <alignment idref="anthus_aco_sub"/>
                </taxonset>
            </tree>
            <parameter id="birthRate.t:anthus_aco_sub" spec="parameter.RealParameter" name="stateNode">1.0</parameter>
            <parameter id="kappa.s:anthus_aco_sub" spec="parameter.RealParameter" lower="0.0" name="stateNode">2.0</parameter>
            <parameter id="freqParameter.s:anthus_aco_sub" spec="parameter.RealParameter" dimension="4" lower="0.0" name="stateNode" upper="1.0">0.25</parameter>
        </state>
        <init id="RandomTree.t:anthus_aco_sub" spec="beast.evolution.tree.RandomTree" estimate="false" initial="@Tree.t:anthus_aco_sub" taxa="@anthus_aco_sub">
            <populationModel id="ConstantPopulation0.t:anthus_aco_sub" spec="ConstantPopulation">
                <parameter id="randomPopSize.t:anthus_aco_sub" spec="parameter.RealParameter" name="popSize">1.0</parameter>
            </populationModel>
        </init>
        <distribution id="posterior" spec="util.CompoundDistribution">
            <distribution id="prior" spec="util.CompoundDistribution">
                <distribution id="YuleModel.t:anthus_aco_sub" spec="beast.evolution.speciation.YuleModel" birthDiffRate="@birthRate.t:anthus_aco_sub" tree="@Tree.t:anthus_aco_sub"/>
                <prior id="YuleBirthRatePrior.t:anthus_aco_sub" name="distribution" x="@birthRate.t:anthus_aco_sub">
                    <Uniform id="Uniform.1" name="distr" upper="Infinity"/>
                </prior>
                <prior id="FrequenciesPrior.s:anthus_aco_sub" name="distribution" x="@freqParameter.s:anthus_aco_sub">
                    <Uniform id="Uniform.3" name="distr"/>
                </prior>
                <prior id="KappaPrior.s:anthus_aco_sub" name="distribution" x="@kappa.s:anthus_aco_sub">
                    <LogNormal id="LogNormalDistributionModel.0" name="distr">
                        <parameter id="RealParameter.1" spec="parameter.RealParameter" estimate="false" name="M">1.0</parameter>
                        <parameter id="RealParameter.2" spec="parameter.RealParameter" estimate="false" name="S">1.25</parameter>
                    </LogNormal>
                </prior>
                <distribution id="ingroup.prior" spec="beast.math.distributions.MRCAPrior" monophyletic="true" tree="@Tree.t:anthus_aco_sub">
                    <taxonset id="ingroup" spec="TaxonSet">
                        <taxon id="626029_aco" spec="Taxon"/>
                        <taxon id="630116_aco" spec="Taxon"/>
                        <taxon id="630210_aco" spec="Taxon"/>
                        <taxon id="B25702_aco" spec="Taxon"/>
                    </taxonset>
                </distribution>
            </distribution>
            <distribution id="likelihood" spec="util.CompoundDistribution" useThreads="true">
                <distribution id="treeLikelihood.anthus_aco_sub" spec="ThreadedTreeLikelihood" data="@anthus_aco_sub" tree="@Tree.t:anthus_aco_sub">
                    <siteModel id="SiteModel.s:anthus_aco_sub" spec="SiteModel">
                        <parameter id="mutationRate.s:anthus_aco_sub" spec="parameter.RealParameter" estimate="false" name="mutationRate">1.0</parameter>
                        <parameter id="gammaShape.s:anthus_aco_sub" spec="parameter.RealParameter" estimate="false" name="shape">1.0</parameter>
                        <parameter id="proportionInvariant.s:anthus_aco_sub" spec="parameter.RealParameter" estimate="false" lower="0.0" name="proportionInvariant" upper="1.0">0.0</parameter>
                        <substModel id="hky.s:anthus_aco_sub" spec="HKY" kappa="@kappa.s:anthus_aco_sub">
                            <frequencies id="estimatedFreqs.s:anthus_aco_sub" spec="Frequencies" frequencies="@freqParameter.s:anthus_aco_sub"/>
                        </substModel>
                    </siteModel>
                    <branchRateModel id="StrictClock.c:anthus_aco_sub" spec="beast.evolution.branchratemodel.StrictClockModel">
                        <parameter id="clockRate.c:anthus_aco_sub" spec="parameter.RealParameter" estimate="false" name="clock.rate">0.00277</parameter>
                    </branchRateModel>
                </distribution>
            </distribution>
        </distribution>
        <operator id="YuleBirthRateScaler.t:anthus_aco_sub" spec="ScaleOperator" parameter="@birthRate.t:anthus_aco_sub" weight="3.0"/>
        <operator id="YuleModelTreeScaler.t:anthus_aco_sub" spec="ScaleOperator" scaleFactor="0.5" tree="@Tree.t:anthus_aco_sub" weight="3.0"/>
        <operator id="YuleModelTreeRootScaler.t:anthus_aco_sub" spec="ScaleOperator" rootOnly="true" scaleFactor="0.5" tree="@Tree.t:anthus_aco_sub" weight="3.0"/>
        <operator id="YuleModelUniformOperator.t:anthus_aco_sub" spec="Uniform" tree="@Tree.t:anthus_aco_sub" weight="30.0"/>
        <operator id="YuleModelSubtreeSlide.t:anthus_aco_sub" spec="SubtreeSlide" tree="@Tree.t:anthus_aco_sub" weight="15.0"/>
        <operator id="YuleModelNarrow.t:anthus_aco_sub" spec="Exchange" tree="@Tree.t:anthus_aco_sub" weight="15.0"/>
        <operator id="YuleModelWide.t:anthus_aco_sub" spec="Exchange" isNarrow="false" tree="@Tree.t:anthus_aco_sub" weight="3.0"/>
        <operator id="YuleModelWilsonBalding.t:anthus_aco_sub" spec="WilsonBalding" tree="@Tree.t:anthus_aco_sub" weight="3.0"/>
        <operator id="KappaScaler.s:anthus_aco_sub" spec="ScaleOperator" parameter="@kappa.s:anthus_aco_sub" scaleFactor="0.5" weight="0.1"/>
        <operator id="FrequenciesExchanger.s:anthus_aco_sub" spec="DeltaExchangeOperator" delta="0.01" weight="0.1">
            <parameter idref="freqParameter.s:anthus_aco_sub"/>
        </operator>
        <logger id="tracelog" spec="Logger" fileName="anthus_aco_sub.log" logEvery="1000" model="@posterior" sanitiseHeaders="true" sort="smart">
            <log idref="posterior"/>
            <log idref="likelihood"/>
            <log idref="prior"/>
            <log idref="treeLikelihood.anthus_aco_sub"/>
            <log id="TreeHeight.t:anthus_aco_sub" spec="beast.evolution.tree.TreeHeightLogger" tree="@Tree.t:anthus_aco_sub"/>
            <log idref="YuleModel.t:anthus_aco_sub"/>
            <log idref="birthRate.t:anthus_aco_sub"/>
            <log idref="kappa.s:anthus_aco_sub"/>
            <log idref="ingroup.prior"/>
            <log idref="freqParameter.s:anthus_aco_sub"/>
        </logger>
        <logger id="screenlog" spec="Logger" logEvery="1000">
            <log idref="posterior"/>
            <log idref="likelihood"/>
            <log idref="prior"/>
        </logger>
        <logger id="treelog.t:anthus_aco_sub" spec="Logger" fileName="$(tree).trees" logEvery="1000" mode="tree">
            <log id="TreeWithMetaDataLogger.t:anthus_aco_sub" spec="beast.evolution.tree.TreeWithMetaDataLogger" tree="@Tree.t:anthus_aco_sub"/>
        </logger>
        <operatorschedule id="OperatorSchedule" spec="OperatorSchedule"/>
    </run>
</beast>
