<?xml version="1.0" encoding="utf-8"?>
<orthoXML xmlns="http://orthoXML.org/2011/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" version="0.3" origin="InParanoid" originVersion="8.0" xsi:schemaLocation="http://orthoXML.org/2011/ http://www.orthoxml.org/0.3/orthoxml.xsd">
  <notes>
    <stats ortholog_groups="312" inparalogs="848"/>
    <parameters scoreCutoff="40" confidenceCutoff="0.05" overlapCutoff="0.5" mergingCutoff="0.5" matrix="BLOSUM62"/>
  </notes>
  <species name="Tetraodon nigroviridis " NCBITaxId="99883">
    <database name="UniProt" version="UniProt_Complete_Proteomes_2013_06" protLink="http://www.uniprot.org/uniprot/">
      <genes>
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        <gene id="4" protId="H3BVU1" geneId="ACSS2"/>
        <gene id="5" protId="H3DBL0" geneId="uncharacterized_H3DBL0"/>
        <gene id="7" protId="H3CRE9" geneId="VARS"/>
        <gene id="8" protId="H3C5W5" geneId="VARS2"/>
        <gene id="10" protId="H3D6W2" geneId="ATP5B"/>
        <gene id="12" protId="H3CF18" geneId="GUF1"/>
        <gene id="14" protId="H3DH01" geneId="ATP5A1 (1 of 2)"/>
        <gene id="16" protId="H3DN28" geneId="HSPA5"/>
        <gene id="17" protId="H3DM99" geneId="uncharacterized_H3DM99"/>
        <gene id="18" protId="Q4SL93" geneId="HSPA8"/>
        <gene id="19" protId="H3CF85" geneId="HSPA1A"/>
        <gene id="21" protId="H3CCI0" geneId="LONP1"/>
        <gene id="23" protId="H3D1U3" geneId="HSPD1"/>
        <gene id="25" protId="H3CW90" geneId="LARS2"/>
        <gene id="27" protId="H3CIK2" geneId="ATP2C1 (2 of 2)"/>
        <gene id="29" protId="H3D392" geneId="TKT (1 of 2)"/>
        <gene id="31" protId="H3CLN4" geneId="ATP1A1 (1 of 2)"/>
        <gene id="32" protId="H3CH26" geneId="uncharacterized_H3CH26"/>
        <gene id="33" protId="H3DI96" geneId="ATP1A3 (3 of 4)"/>
        <gene id="35" protId="H3CIN2" geneId="IARS2"/>
        <gene id="37" protId="H3DP28" geneId="SDHA"/>
        <gene id="39" protId="Q4S9H0" geneId="TUFM (1 of 2)"/>
        <gene id="41" protId="H3DJB2" geneId="MTHFD1"/>
        <gene id="42" protId="H3C073" geneId="MTHFD1L"/>
        <gene id="44" protId="H3CGF7" geneId="uncharacterized_H3CGF7"/>
        <gene id="45" protId="H3CR92" geneId="AFG3L2 (2 of 2)"/>
        <gene id="47" protId="H3CEF1" geneId="AARS"/>
        <gene id="49" protId="H3DNN0" geneId="MTO1"/>
        <gene id="51" protId="H3CWR0" geneId="CTPS1 (2 of 3)"/>
        <gene id="53" protId="H3C9W2" geneId="C22orf28"/>
        <gene id="55" protId="H3C316" geneId="ATP7B"/>
        <gene id="56" protId="H3CU51" geneId="ATP7A"/>
        <gene id="58" protId="H3DEV3" geneId="TARS"/>
        <gene id="59" protId="H3D2Z9" geneId="TARSL2 (2 of 2)"/>
        <gene id="60" protId="H3CRK0" geneId="TARS2"/>
        <gene id="62" protId="H3CCB5" geneId="DARS2"/>
        <gene id="64" protId="H3CPT5" geneId="PNPT1"/>
        <gene id="66" protId="H3CLU2" geneId="MTIF2"/>
        <gene id="69" protId="H3D659" geneId="PC (2 of 3)"/>
        <gene id="71" protId="Q4SJ84" geneId="MAT2A (2 of 2)"/>
        <gene id="72" protId="H3CTC8" geneId="MAT1A (1 of 2)"/>
        <gene id="73" protId="H3D7K5" geneId="uncharacterized_H3D7K5"/>
        <gene id="75" protId="Q4RXG6" geneId="ENO1"/>
        <gene id="76" protId="H3CIH8" geneId="uncharacterized_H3CIH8"/>
        <gene id="77" protId="H3CCD8" geneId="ENO2"/>
        <gene id="78" protId="H3CAK5" geneId="ENO3"/>
        <gene id="80" protId="H3CYS8" geneId="GFPT2"/>
        <gene id="81" protId="H3CBE4" geneId="GFPT1"/>
        <gene id="83" protId="H3CGR7" geneId="ASS1"/>
        <gene id="85" protId="H3CQL2" geneId="GFM1"/>
        <gene id="87" protId="H3D8P7" geneId="UXS1 (1 of 2)"/>
        <gene id="90" protId="H3CDX4" geneId="NDUFS2"/>
        <gene id="92" protId="H3DFD3" geneId="ASL"/>
        <gene id="94" protId="H3DLD8" geneId="OXSM"/>
        <gene id="96" protId="H3CVD5" geneId="KARS"/>
        <gene id="98" protId="H3CZM5" geneId="uncharacterized_H3CZM5"/>
        <gene id="99" protId="H3DHY0" geneId="ADSS"/>
        <gene id="100" protId="H3DJA4" geneId="ADSSL1"/>
        <gene id="102" protId="H3CS21" geneId="GMDS"/>
        <gene id="104" protId="Q4RKX4" geneId="PPAT"/>
        <gene id="106" protId="H3CL90" geneId="SHMT1"/>
        <gene id="107" protId="H3CNM2" geneId="SHMT2 (1 of 2)"/>
        <gene id="109" protId="H3DKS6" geneId="IMPDH1 (2 of 2)"/>
        <gene id="110" protId="H3D3A4" geneId="IMPDH2"/>
        <gene id="112" protId="H3D5X8" geneId="ACO2"/>
        <gene id="114" protId="H3CM65" geneId="AHCY"/>
        <gene id="115" protId="H3DMF5" geneId="AHCYL2 (1 of 5)"/>
        <gene id="116" protId="H3DCE5" geneId="AHCYL1 (1 of 2)"/>
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        <gene id="120" protId="H3CLM0" geneId="ACADM"/>
        <gene id="122" protId="H3DHP8" geneId="PHGDH"/>
        <gene id="124" protId="H3CQC0" geneId="uncharacterized_H3CQC0"/>
        <gene id="126" protId="H3DE80" geneId="MARS2"/>
        <gene id="128" protId="H3CCF3" geneId="GMPS (1 of 2)"/>
        <gene id="130" protId="H3CH30" geneId="POLR2B"/>
        <gene id="131" protId="H3C732" geneId="POLR3B (1 of 2)"/>
        <gene id="133" protId="H3CSY0" geneId="WRNIP1"/>
        <gene id="135" protId="Q4RFF3" geneId="GAPDHS"/>
        <gene id="136" protId="H3CRI0" geneId="uncharacterized_H3CRI0"/>
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        <gene id="139" protId="H3DJZ2" geneId="ABCB10"/>
        <gene id="140" protId="H3DNF2" geneId="ABCB9"/>
        <gene id="142" protId="H3CCJ2" geneId="PET112 (2 of 2)"/>
        <gene id="144" protId="H3D848" geneId="CLPX"/>
        <gene id="146" protId="H3CXP9" geneId="POLR2A"/>
        <gene id="147" protId="H3D6J3" geneId="POLR3A"/>
        <gene id="148" protId="H3CXM9" geneId="POLR1A (2 of 2)"/>
        <gene id="150" protId="H3CYM5" geneId="QTRT1"/>
        <gene id="152" protId="H3CSB0" geneId="uncharacterized_H3CSB0"/>
        <gene id="154" protId="Q4SNA4" geneId="PKLR"/>
        <gene id="155" protId="H3C338" geneId="PKM (1 of 2)"/>
        <gene id="157" protId="H3CPS4" geneId="MTRF1L"/>
        <gene id="159" protId="H3CJ82" geneId="UGDH"/>
        <gene id="161" protId="Q4JQH7" geneId="MT-ND5"/>
        <gene id="163" protId="H3DD48" geneId="MSH3 (1 of 3)"/>
        <gene id="165" protId="Q4SM08" geneId="IDH3A"/>
        <gene id="167" protId="Q4RJ32" geneId="PARS2"/>
        <gene id="169" protId="H3D7B9" geneId="ALDH18A1 (1 of 2)"/>
        <gene id="171" protId="H3CGN6" geneId="CARS"/>
        <gene id="172" protId="H3DAG0" geneId="CARS2"/>
        <gene id="174" protId="H3C245" geneId="OCA2"/>
        <gene id="176" protId="H3CE72" geneId="NFS1"/>
        <gene id="178" protId="H3CPG6" geneId="CDK5RAP1"/>
        <gene id="180" protId="H3CWK0" geneId="ABCA3"/>
        <gene id="181" protId="H3C0X3" geneId="ABCA1 (2 of 2)"/>
        <gene id="182" protId="H3C771" geneId="ABCA7"/>
        <gene id="183" protId="H3D169" geneId="uncharacterized_H3D169"/>
        <gene id="184" protId="H3DBM4" geneId="ABCA4"/>
        <gene id="185" protId="Q4RQS5" geneId="ABCA12"/>
        <gene id="186" protId="H3D2V4" geneId="ABCA5"/>
        <gene id="187" protId="H3CTK4" geneId="uncharacterized_H3CTK4"/>
        <gene id="189" protId="H3CS44" geneId="EARS2"/>
        <gene id="191" protId="H3CU19" geneId="MOCS1"/>
        <gene id="193" protId="H3CFW6" geneId="DLD"/>
        <gene id="195" protId="H3BYW9" geneId="ALAD"/>
        <gene id="197" protId="H3D4Z4" geneId="GTPBP5"/>
        <gene id="199" protId="H3CX69" geneId="STOML3 (1 of 2)"/>
        <gene id="200" protId="H3CI52" geneId="STOM (1 of 2)"/>
        <gene id="202" protId="H3CJ81" geneId="LIAS"/>
        <gene id="204" protId="H3CA69" geneId="SRP54"/>
        <gene id="207" protId="H3CQM3" geneId="RRM1 (1 of 2)"/>
        <gene id="209" protId="H3CFR8" geneId="SPATA20"/>
        <gene id="211" protId="H3D924" geneId="CLPP"/>
        <gene id="213" protId="H3DQ20" geneId="OAT"/>
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        <gene id="217" protId="H3D5I6" geneId="NUBP2"/>
        <gene id="219" protId="Q4TDL9" geneId="SARS (2 of 3)"/>
        <gene id="221" protId="Q4JQI7" geneId="MT-ND1"/>
        <gene id="224" protId="H3CWE5" geneId="SPTLC2 (4 of 4)"/>
        <gene id="225" protId="H3DGV4" geneId="SPTLC3"/>
        <gene id="227" protId="H3DJR1" geneId="UROD"/>
        <gene id="229" protId="H3CXU3" geneId="GTPBP3"/>
        <gene id="232" protId="H3CDX9" geneId="LDHD (1 of 2)"/>
        <gene id="234" protId="H3D981" geneId="mri1"/>
        <gene id="236" protId="Q4REF0" geneId="L2HGDH"/>
        <gene id="238" protId="H3DA39" geneId="HMBS (2 of 2)"/>
        <gene id="240" protId="H3DEU2" geneId="MTHFD2L"/>
        <gene id="241" protId="H3DEH6" geneId="MTHFD2"/>
        <gene id="243" protId="H3DHM0" geneId="GALE"/>
        <gene id="245" protId="H3CWJ7" geneId="DNAJA3 (1 of 2)"/>
        <gene id="247" protId="H3D8R8" geneId="OTC"/>
        <gene id="250" protId="Q4JQH8" geneId="MT-ND4"/>
        <gene id="252" protId="H3CSA6" geneId="CBS"/>
        <gene id="253" protId="H3D8S9" geneId="uncharacterized_H3D8S9"/>
        <gene id="255" protId="H3D5R7" geneId="PMS2"/>
        <gene id="258" protId="H3CXW7" geneId="NDUFS7"/>
        <gene id="260" protId="H3D242" geneId="POLD1"/>
        <gene id="262" protId="H3DL39" geneId="NANS"/>
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        <gene id="267" protId="H3DHL2" geneId="MOCS3"/>
        <gene id="269" protId="H3CP78" geneId="FECH"/>
        <gene id="271" protId="Q4SCA9" geneId="GSTENG00020587001"/>
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        <gene id="275" protId="H3D4E7" geneId="CPSF3L"/>
        <gene id="278" protId="H3BXH2" geneId="NARFL"/>
        <gene id="279" protId="H3D1T2" geneId="NARF"/>
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        <gene id="283" protId="H3CES6" geneId="SLC39A11"/>
        <gene id="285" protId="H3C810" geneId="TGDS"/>
        <gene id="287" protId="H3D5D1" geneId="uncharacterized_H3D5D1"/>
        <gene id="289" protId="H3DL37" geneId="GNE"/>
        <gene id="291" protId="H3BXF4" geneId="CCBL1"/>
        <gene id="292" protId="H3D8B7" geneId="CCBL2"/>
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        <gene id="306" protId="H3D923" geneId="uncharacterized_H3D923"/>
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        <gene id="308" protId="H3CIA9" geneId="AZIN1 (1 of 2)"/>
        <gene id="310" protId="H3CD74" geneId="uncharacterized_H3CD74"/>
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        <gene id="312" protId="H3BWX6" geneId="GSTENG10025395001"/>
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        <gene id="398" protId="H3CHP7" geneId="PMPCB"/>
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        <gene id="404" protId="H3D969" geneId="uncharacterized_H3D969"/>
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        <gene id="463" protId="H3DL71" geneId="uncharacterized_H3DL71"/>
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        <gene id="477" protId="H3CBV8" geneId="uncharacterized_H3CBV8"/>
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        <gene id="807" protId="H3C3T4" geneId="ALG5"/>
        <gene id="809" protId="H3CCT7" geneId="PPP2R1B"/>
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        <gene id="820" protId="H3D5J4" geneId="STUB1"/>
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        <gene id="826" protId="H3CJ93" geneId="PDXK (1 of 2)"/>
        <gene id="828" protId="H3CV85" geneId="CALB2 (1 of 2)"/>
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        <gene id="831" protId="H3CG04" geneId="RNASEH2A"/>
        <gene id="833" protId="H3CAK9" geneId="NANP"/>
        <gene id="835" protId="H3D0G4" geneId="RPS15"/>
        <gene id="838" protId="H3D398" geneId="PRKAR2A (1 of 2)"/>
        <gene id="839" protId="H3DF21" geneId="PRKAR2B"/>
        <gene id="840" protId="H3DKT5" geneId="PRKAR1B"/>
        <gene id="841" protId="H3D5P8" geneId="PRKAR1A"/>
        <gene id="843" protId="H3DJ47" geneId="ACYP1"/>
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        <gene id="846" protId="H3CQM4" geneId="QPCTL"/>
        <gene id="848" protId="Q4T3W7" geneId="ATP5D"/>
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    </database>
    <notes>
      <additionalInformation abbreviation="T.nigroviridis" link="http://www.uniprot.org/taxonomy/99883"/>
    </notes>
  </species>
  <species name="Thermodesulfovibrio yellowstonii " NCBITaxId="289376">
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    </database>
    <notes>
      <additionalInformation abbreviation="T.yellowstonii" link="http://www.uniprot.org/taxonomy/289376"/>
    </notes>
  </species>
  <scores>
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    <scoreDef id="inparalog" desc="Inparalog similarity relative to seed ortholog similarity"/>
    <scoreDef id="bootstrap" desc="Reliability of seed orthologs"/>
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        <score id="inparalog" value="1"/>
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      <geneRef id="5">
        <score id="inparalog" value="0.281"/>
      </geneRef>
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        <score id="bootstrap" value="1"/>
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    <orthologGroup id="4">
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        <score id="bootstrap" value="1"/>
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        <score id="inparalog" value="1"/>
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        <score id="bootstrap" value="1"/>
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        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
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        <score id="inparalog" value="1"/>
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        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
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        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
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        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="0.56"/>
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      <geneRef id="17">
        <score id="inparalog" value="0.292"/>
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      <geneRef id="18">
        <score id="inparalog" value="0.289"/>
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        <score id="inparalog" value="0.27"/>
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        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="0.65"/>
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