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<lamarc version="2.1">
<!-- Created by the Lamarc program -->
<chains>
<replicates>1</replicates>
<bayesian-analysis>No</bayesian-analysis>
<heating>
<adaptive>false</adaptive>
<temperatures> 1</temperatures>
<swap-interval>10</swap-interval>
</heating>
<strategy>
<resimulating>0.833333</resimulating>
<tree-size>0.166667</tree-size>
<haplotyping>0</haplotyping>
<trait-arranger>0</trait-arranger>
</strategy>
<initial>
<number>10</number>
<samples>500</samples>
<discard>1000</discard>
<interval>20</interval>
</initial>
<final>
<number>2</number>
<samples>10000</samples>
<discard>1000</discard>
<interval>20</interval>
</final>
</chains>
<format>
<seed>3001</seed>
<verbosity>normal</verbosity>
<progress-reports>normal</progress-reports>
<results-file>outfile</results-file>
<use-in-summary>false</use-in-summary>
<in-summary-file>insumfile</in-summary-file>
<use-out-summary>false</use-out-summary>
<out-summary-file>outsumfile</out-summary-file>
<use-curvefiles>true</use-curvefiles>
<curvefile-prefix>curvefile</curvefile-prefix>
<use-tracefile>true</use-tracefile>
<tracefile-prefix>tracefile</tracefile-prefix>
<use-newicktreefile>false</use-newicktreefile>
<newicktreefile-prefix>newick</newicktreefile-prefix>
<out-xml-file>menuinfile</out-xml-file>
</format>
<forces>
<coalescence>
<start-values> 0.01</start-values>
<method> USER</method>
<max-events>100000</max-events>
<profiles> percentile </profiles>
<constraints> unconstrained </constraints>
<prior type="log">
<paramindex> all </paramindex>
<lower> 1e-05 </lower>
<upper> 10 </upper>
</prior>
</coalescence>
</forces>
<data>
<region name="jointloci">
<model name="F84">
<normalize>false</normalize>
<categories>
<num-categories>1</num-categories>
<rates> 1</rates>
<probabilities> 1</probabilities>
<autocorrelation>1</autocorrelation>
</categories>
<relative-murate>1</relative-murate>
<base-freqs> 0.25 0.25 0.25 0.25</base-freqs>
<ttratio>2</ttratio>
</model>
<effective-popsize>1</effective-popsize>
<spacing>
<block>
<map-position>0</map-position>
<length>100</length>
<locations> 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99</locations>
<offset>0</offset>
</block>
</spacing>
<population name="seattle">
<individual name="00_0001 ">
<sample name="00_0001 ">
<datablock type="DNA">
CAAGCCGTTTGGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGAGACATTCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0006 ">
<sample name="00_0006 ">
<datablock type="DNA">
CAAGCAATTTCGCCCAGGGCTAGGGGGTGCCGGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGAGACATTCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0007 ">
<sample name="00_0007 ">
<datablock type="DNA">
CAAACAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGAGACATTCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0002 ">
<sample name="00_0002 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGAGACATGCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0008 ">
<sample name="00_0008 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGAGACATGCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0003 ">
<sample name="00_0003 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGCTTAGAAGGGTAACCGAGACATGCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0009 ">
<sample name="00_0009 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGGGACATGCCACAGCTA
</datablock>
</sample>
</individual>
<individual name="00_0005 ">
<sample name="00_0005 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTAGCCCATGTGTGATTAGAAGGGTAACCGGGGCATGCCACAACTA
</datablock>
</sample>
</individual>
<individual name="00_0000 ">
<sample name="00_0000 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGATGGATTTTATTCGCTTGCCCATGTGTGATTAGAAGGGTAACCGAGACATGCCACAACTA
</datablock>
</sample>
</individual>
<individual name="00_0004 ">
<sample name="00_0004 ">
<datablock type="DNA">
CAAGCAGTTTCGCCCAGGGCTAGGGGGTGCCAGGGTCATGGTGGATTTTATTCGCTAGCCCACGTGTGATTAGAAGGGTAACCGAGACATGCCACAACTA
</datablock>
</sample>
</individual>
</population>
</region>
</data>
</lamarc>
|
