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  <notes>
    <stats ortholog_groups="2311" inparalogs="6766"/>
    <parameters scoreCutoff="40" confidenceCutoff="0.05" overlapCutoff="0.5" mergingCutoff="0.5" matrix="BLOSUM62"/>
  </notes>
  <species name="Oreochromis niloticus " NCBITaxId="8128">
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    <notes>
      <additionalInformation abbreviation="O.niloticus" link="http://www.uniprot.org/taxonomy/8128"/>
    </notes>
  </species>
  <species name="Puccinia graminis f. sp. tritici " NCBITaxId="418459">
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        <gene id="6529" protId="E3KD84" geneId="PGTG_07505"/>
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        <gene id="6582" protId="E3KD98" geneId="PGTG_07709"/>
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        <gene id="6607" protId="H6QQM7" geneId="PGTG_21211"/>
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        <gene id="6650" protId="E3JZA6" geneId="PGTG_03337"/>
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        <gene id="6660" protId="E3JSX6" geneId="PGTG_01744"/>
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        <gene id="6701" protId="E3K531" geneId="PGTG_05667"/>
        <gene id="6702" protId="E3L473" geneId="PGTG_17002"/>
        <gene id="6703" protId="E3KBE2" geneId="PGTG_07904"/>
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        <gene id="6706" protId="E3L350" geneId="PGTG_17247"/>
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        <gene id="6708" protId="E3K8T0" geneId="PGTG_06592"/>
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        <gene id="6710" protId="E3L351" geneId="PGTG_17248"/>
        <gene id="6715" protId="E3KDL8" geneId="PGTG_08410"/>
        <gene id="6717" protId="H6QPH1" geneId="PGTG_20890"/>
        <gene id="6718" protId="E3KKQ6" geneId="PGTG_10352"/>
        <gene id="6719" protId="H6QPG9" geneId="PGTG_20888"/>
        <gene id="6722" protId="E3KNW6" geneId="PGTG_11747"/>
        <gene id="6725" protId="E3K438" geneId="PGTG_04796"/>
        <gene id="6728" protId="E3JT45" geneId="PGTG_01865"/>
        <gene id="6730" protId="E3K893" geneId="PGTG_06667"/>
        <gene id="6732" protId="H6QQG4" geneId="PGTG_21123"/>
        <gene id="6734" protId="E3JZT9" geneId="PGTG_03520"/>
        <gene id="6736" protId="E3JQR3" geneId="PGTG_00469"/>
        <gene id="6738" protId="E3KFR9" geneId="PGTG_09157"/>
        <gene id="6740" protId="E3KGM0" geneId="PGTG_08631"/>
        <gene id="6742" protId="E3JSD0" geneId="PGTG_01448"/>
        <gene id="6745" protId="E3KWR0" geneId="PGTG_14693"/>
        <gene id="6748" protId="H6QQ84" geneId="PGTG_21057"/>
        <gene id="6754" protId="E3KGP6" geneId="PGTG_08657"/>
        <gene id="6755" protId="E3KXX5" geneId="PGTG_14902"/>
        <gene id="6756" protId="E3L5Q5" geneId="PGTG_18074"/>
        <gene id="6757" protId="E3L5S0" geneId="PGTG_17922"/>
        <gene id="6760" protId="E3K8U1" geneId="PGTG_06603"/>
        <gene id="6762" protId="E3KDE7" geneId="PGTG_07553"/>
        <gene id="6764" protId="E3K862" geneId="PGTG_06392"/>
        <gene id="6766" protId="E3JXX5" geneId="PGTG_02361"/>
      </genes>
    </database>
    <notes>
      <additionalInformation abbreviation="P.graminis" link="http://www.uniprot.org/taxonomy/418459"/>
    </notes>
  </species>
  <scores>
    <scoreDef id="bit" desc="BLAST score in bits of seed orthologs"/>
    <scoreDef id="inparalog" desc="Inparalog similarity relative to seed ortholog similarity"/>
    <scoreDef id="bootstrap" desc="Reliability of seed orthologs"/>
  </scores>
  <groups>
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      <score id="bit" value="4849"/>
      <geneRef id="1">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="2">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
    </orthologGroup>
    <orthologGroup id="2">
      <score id="bit" value="3725"/>
      <geneRef id="3">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="4">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
    </orthologGroup>
    <orthologGroup id="3">
      <score id="bit" value="2121"/>
      <geneRef id="5">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="6">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="7">
        <score id="inparalog" value="0.174"/>
      </geneRef>
    </orthologGroup>
    <orthologGroup id="4">
      <score id="bit" value="2090"/>
      <geneRef id="8">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="9">
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