253 lines
11 KiB
Plaintext
253 lines
11 KiB
Plaintext
head 1.2;
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access;
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symbols;
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locks; strict;
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comment @# @;
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expand @o@;
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1.2
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date 2010.10.05.15.45.35; author ArlinStoltzfus; state Exp;
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branches;
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next 1.1;
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1.1
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date 2010.10.05.14.27.06; author ArlinStoltzfus; state Exp;
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branches;
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next ;
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desc
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@none
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@
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1.2
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log
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@4-taxon test case in nexml format
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@
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text
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@<nex:nexml generator="Bio::Phylo::Project v.0.21_1265" version="0.9" xmlns="http://www.nexml.org/2009" xmlns:nex="http://www.nexml.org/2009" xmlns:skos="http://www.w3.org/2004/02/skos/core#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:xml="http://www.w3.org/XML/1998/namespace" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.nexml.org/2009 http://www.nexml.org/2009/nexml.xsd">
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<otus id="otus1">
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<otu about="#otu2" id="otu2" label="Mus_musculus_CAA25899.1">
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<meta href="http://www.ubio.org/authority/metadata.php?lsid=urn:lsid:ubio.org:namebank:2481174" id="meta1" rel="skos:closeMatch" xsi:type="nex:ResourceMeta"/>
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<meta content="Mus Musculus" datatype="xsd:string" id="meta2" property="skos:altLabel" xsi:type="nex:LiteralMeta"/>
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</otu>
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<otu id="otu3" label="Rattus_norvegicus_AAA21711.1">
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<meta href="http://www.ubio.org/authority/metadata.php?lsid=urn:lsid:ubio.org:namebank:2481343" id="meta3" rel="skos:closeMatch" xsi:type="nex:ResourceMeta"/>
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<meta content="Rattus norvegicus" datatype="xsd:string" id="meta4" property="skos:altLabel" xsi:type="nex:LiteralMeta"/>
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</otu>
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<otu id="otu4" label="Gallus_gallus_CAA25046.1">
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<meta href="http://www.ubio.org/authority/metadata.php?lsid=urn:lsid:ubio.org:namebank:3854553" id="meta5" rel="skos:closeMatch" xsi:type="nex:ResourceMeta"/>
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<meta content="Gallus gallus" datatype="xsd:string" id="meta6" property="skos:altLabel" xsi:type="nex:LiteralMeta"/>
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</otu>
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<otu id="otu5" label="Rattus_norvegicus_AAA41015.1">
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<meta href="http://www.ubio.org/authority/metadata.php?lsid=urn:lsid:ubio.org:namebank:2481343" id="meta7" rel="skos:closeMatch" xsi:type="nex:ResourceMeta"/>
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<meta content="Rattus norvegicus" datatype="xsd:string" id="meta8" property="skos:altLabel" xsi:type="nex:LiteralMeta"/>
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</otu>
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</otus>
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<trees id="trees12" otus="otus1">
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<tree id="tree14" label="con_50_majrule" xsi:type="nex:FloatTree">
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<node id="node15" root="true"/>
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<node id="node16"/>
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<node id="node19"/>
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<node id="node17" label="Mus_musculus_CAA25899.1" otu="otu2"/>
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<node id="node18" label="Rattus_norvegicus_AAA21711.1" otu="otu3"/>
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<node id="node20" label="Gallus_gallus_CAA25046.1" otu="otu4"/>
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<node id="node21" label="Rattus_norvegicus_AAA41015.1" otu="otu5"/>
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<edge id="edge16" length="0.024280" source="node15" target="node16"/>
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<edge id="edge19" length="0.040335" source="node15" target="node19"/>
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<edge id="edge17" length="0.008307" source="node16" target="node17"/>
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<edge id="edge18" length="0.009662" source="node16" target="node18"/>
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<edge id="edge20" length="0.055226" source="node19" target="node20"/>
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<edge id="edge21" length="0.117358" source="node19" target="node21"/>
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</tree>
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</trees>
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<characters id="characters6" otus="otus1" xsi:type="nex:ProteinCells">
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<format id="format22">
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<states id="states8">
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<state id="s1" symbol="A"/>
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<state id="s2" symbol="C"/>
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<state id="s3" symbol="D"/>
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<state id="s4" symbol="E"/>
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<state id="s5" symbol="F"/>
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<state id="s6" symbol="G"/>
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<state id="s7" symbol="H"/>
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<state id="s8" symbol="I"/>
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<state id="s9" symbol="K"/>
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<state id="s10" symbol="L"/>
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<state id="s11" symbol="M"/>
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<state id="s12" symbol="N"/>
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<state id="s13" symbol="P"/>
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<state id="s14" symbol="Q"/>
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<state id="s15" symbol="R"/>
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<state id="s16" symbol="S"/>
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<state id="s17" symbol="T"/>
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<state id="s18" symbol="U"/>
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<state id="s19" symbol="V"/>
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<state id="s20" symbol="W"/>
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<state id="s21" symbol="X"/>
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<state id="s22" symbol="Y"/>
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<uncertain_state_set id="s23" symbol="B">
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<member id="member24" state="s3"/>
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<member id="member24" state="s12"/>
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</uncertain_state_set>
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<uncertain_state_set id="s24" symbol="Z">
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<member id="member23" state="s4"/>
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<member id="member23" state="s14"/>
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</uncertain_state_set>
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<uncertain_state_set id="s25" symbol="-"/>
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<uncertain_state_set id="s26" symbol="?">
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<member id="member24" state="s1"/>
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<member id="member24" state="s2"/>
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<member id="member24" state="s3"/>
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<member id="member24" state="s4"/>
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<member id="member24" state="s5"/>
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<member id="member24" state="s6"/>
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<member id="member24" state="s7"/>
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<member id="member24" state="s8"/>
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<member id="member24" state="s9"/>
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<member id="member24" state="s10"/>
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<member id="member24" state="s11"/>
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<member id="member24" state="s12"/>
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<member id="member24" state="s13"/>
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<member id="member24" state="s14"/>
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<member id="member24" state="s15"/>
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<member id="member24" state="s16"/>
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<member id="member24" state="s17"/>
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<member id="member24" state="s18"/>
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<member id="member24" state="s19"/>
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<member id="member24" state="s20"/>
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<member id="member24" state="s21"/>
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<member id="member24" state="s22"/>
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<member id="member24" state="s23"/>
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<member id="member24" state="s24"/>
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<member id="member24" state="s25"/>
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</uncertain_state_set>
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</states>
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<char id="c1" states="states8"/>
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<char id="c2" states="states8"/>
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<char id="c3" states="states8"/>
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<char id="c4" states="states8"/>
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<char id="c5" states="states8"/>
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<char id="c6" states="states8"/>
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<char id="c7" states="states8"/>
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<char id="c8" states="states8"/>
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<char id="c9" states="states8"/>
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<char id="c10" states="states8"/>
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<char id="c11" states="states8"/>
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<char id="c12" states="states8"/>
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<char id="c13" states="states8"/>
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<char id="c14" states="states8"/>
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<char id="c15" states="states8"/>
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<char id="c16" states="states8"/>
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<char id="c17" states="states8"/>
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<char id="c18" states="states8"/>
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<char id="c19" states="states8"/>
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<char id="c20" states="states8"/>
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</format>
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<matrix id="matrix24">
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<row id="row7" label="Mus_musculus_CAA25899.1" otu="otu2">
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<cell char="c1" id="cell23" state="s11"/>
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<cell char="c2" id="cell23" state="s6"/>
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<cell char="c3" id="cell23" state="s3"/>
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<cell char="c4" id="cell23" state="s19"/>
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<cell char="c5" id="cell23" state="s4"/>
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<cell char="c6" id="cell23" state="s9"/>
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<cell char="c7" id="cell23" state="s6"/>
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<cell char="c8" id="cell23" state="s9"/>
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<cell char="c9" id="cell23" state="s9"/>
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<cell char="c10" id="cell23" state="s8"/>
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<cell char="c11" id="cell23" state="s5"/>
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<cell char="c12" id="cell23" state="s19"/>
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<cell char="c13" id="cell23" state="s14"/>
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<cell char="c14" id="cell23" state="s9"/>
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<cell char="c15" id="cell23" state="s2"/>
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<cell char="c16" id="cell23" state="s1"/>
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<cell char="c17" id="cell23" state="s14"/>
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<cell char="c18" id="cell23" state="s2"/>
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<cell char="c19" id="cell23" state="s7"/>
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<cell char="c20" id="cell23" state="s17"/>
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</row>
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<row id="row9" label="Rattus_norvegicus_AAA41015.1" otu="otu5">
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<cell char="c1" id="cell23" state="s11"/>
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<cell char="c2" id="cell23" state="s6"/>
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<cell char="c3" id="cell23" state="s3"/>
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<cell char="c4" id="cell23" state="s1"/>
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<cell char="c5" id="cell23" state="s4"/>
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<cell char="c6" id="cell23" state="s1"/>
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<cell char="c7" id="cell23" state="s6"/>
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<cell char="c8" id="cell23" state="s9"/>
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<cell char="c9" id="cell23" state="s9"/>
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<cell char="c10" id="cell23" state="s8"/>
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<cell char="c11" id="cell23" state="s5"/>
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<cell char="c12" id="cell23" state="s8"/>
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<cell char="c13" id="cell23" state="s14"/>
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<cell char="c14" id="cell23" state="s9"/>
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<cell char="c15" id="cell23" state="s2"/>
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<cell char="c16" id="cell23" state="s1"/>
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<cell char="c17" id="cell23" state="s14"/>
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<cell char="c18" id="cell23" state="s2"/>
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<cell char="c19" id="cell23" state="s7"/>
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<cell char="c20" id="cell23" state="s17"/>
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</row>
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<row id="row10" label="Gallus_gallus_CAA25046.1" otu="otu4">
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<cell char="c1" id="cell23" state="s11"/>
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<cell char="c2" id="cell23" state="s6"/>
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<cell char="c3" id="cell23" state="s3"/>
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<cell char="c4" id="cell23" state="s8"/>
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<cell char="c5" id="cell23" state="s4"/>
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<cell char="c6" id="cell23" state="s9"/>
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<cell char="c7" id="cell23" state="s6"/>
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<cell char="c8" id="cell23" state="s9"/>
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<cell char="c9" id="cell23" state="s9"/>
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<cell char="c10" id="cell23" state="s8"/>
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<cell char="c11" id="cell23" state="s5"/>
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<cell char="c12" id="cell23" state="s19"/>
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<cell char="c13" id="cell23" state="s14"/>
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<cell char="c14" id="cell23" state="s9"/>
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<cell char="c15" id="cell23" state="s2"/>
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<cell char="c16" id="cell23" state="s16"/>
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<cell char="c17" id="cell23" state="s14"/>
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<cell char="c18" id="cell23" state="s2"/>
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<cell char="c19" id="cell23" state="s7"/>
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<cell char="c20" id="cell23" state="s17"/>
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</row>
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<row id="row11" label="Rattus_norvegicus_AAA21711.1" otu="otu3">
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<cell char="c1" id="cell23" state="s11"/>
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<cell char="c2" id="cell23" state="s6"/>
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<cell char="c3" id="cell23" state="s3"/>
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<cell char="c4" id="cell23" state="s19"/>
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<cell char="c5" id="cell23" state="s4"/>
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<cell char="c6" id="cell23" state="s9"/>
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<cell char="c7" id="cell23" state="s6"/>
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<cell char="c8" id="cell23" state="s9"/>
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<cell char="c9" id="cell23" state="s9"/>
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<cell char="c10" id="cell23" state="s8"/>
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<cell char="c11" id="cell23" state="s5"/>
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<cell char="c12" id="cell23" state="s19"/>
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<cell char="c13" id="cell23" state="s14"/>
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<cell char="c14" id="cell23" state="s9"/>
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<cell char="c15" id="cell23" state="s2"/>
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<cell char="c16" id="cell23" state="s1"/>
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<cell char="c17" id="cell23" state="s14"/>
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<cell char="c18" id="cell23" state="s2"/>
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<cell char="c19" id="cell23" state="s7"/>
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<cell char="c20" id="cell23" state="s17"/>
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</row>
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</matrix>
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</characters>
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</nex:nexml>
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@
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1.1
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log
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@4-taxon test case in nexml format
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@
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text
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@d1 1
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a1 1
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<nex:nexml generator="Bio::Phylo::Project v.0.21_1265" version="0.9" xmlns="http://www.nexml.org/2009" xmlns:nex="http://www.nexml.org/2009" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:xml="http://www.w3.org/XML/1998/namespace" xmlns:xsd="http://www.w3.org/2001/XMLSchema#" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.nexml.org/2009 http://www.nexml.org/2009/nexml.xsd">
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@
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