<?xml version="1.0" encoding="utf-8"?>
<orthoXML>

  <notes>
    Example OrthoXML file. Stripped down version of a real InParanoid 7.0 file.
  </notes>

  <species name="Caenorhabditis elegans" NCBITaxId="6239">
    <database name="WormBase" version="Caenorhabditis-elegans_WormBase_WS199_protein-all.fa"
      geneLink="http://www.wormbase.org/db/gene/gene?name="
      protLink="http://www.wormbase.org/db/seq/protein?name=WP:">
      <genes>
        <gene id="1" geneId="WBGene00000962" protId="CE23997" />
        <gene id="5" geneId="WBGene00006801" protId="CE43332" />
      </genes>
    </database>
  </species>

  <species name="Homo Sapiens" NCBITaxId="9606">
    <database name="Ensembl" version="Homo_sapiens.NCBI36.52.pep.all.fa"
      geneLink="http://Dec2008.archive.ensembl.org/Homo_sapiens/geneview?gene="
      protLink="http://Dec2008.archive.ensembl.org/Homo_sapiens/protview?peptide=">
      <genes>
        <gene id="2" geneId="ENSG00000197102" protId="ENSP00000348965" />
        <gene id="6" geneId="ENSG00000198626" protId="ENSP00000355533" />
        <gene id="7" protId="ENSP00000373884" />
      </genes>
    </database>
  </species>

  <scores>
    <scoreDef id="bit" desc="BLAST score in bits of seed orthologs" />
    <scoreDef id="inparalog" desc="Distance between edge seed ortholog" />
    <scoreDef id="bootstrap" desc="Reliability of seed orthologs" />
  </scores>

  <groups>
    <orthologGroup id="1">
      <score id="bit" value="5093" />
      <property name="foo" value="bar"/>
      <geneRef id="1">
        <score id="inparalog" value="1" />
        <score id="bootstrap" value="1.00" />
      </geneRef>
      <geneRef id="2">
        <score id="inparalog" value="1" />
        <score id="bootstrap" value="0.90" />
      </geneRef>
    </orthologGroup>
    <orthologGroup id="3">
      <score id="bit" value="3795" />
      <geneRef id="5">
        <score id="inparalog" value="0.89" />
        <score id="bootstrap" value="1.00" />
      </geneRef>
      <geneRef id="6">
        <score id="inparalog" value="1" />
        <score id="bootstrap" value="1.00" />
      </geneRef>
      <geneRef id="7">
        <score id="inparalog" value="0.4781" />
		<score id="bootstrap" value="0.881" />
      </geneRef>
    </orthologGroup>
  </groups>

</orthoXML>
