<?xml version="1.0" encoding="utf-8"?>
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  <notes>
    <stats ortholog_groups="334" inparalogs="880"/>
    <parameters scoreCutoff="40" confidenceCutoff="0.05" overlapCutoff="0.5" mergingCutoff="0.5" matrix="BLOSUM62"/>
  </notes>
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    <notes>
      <additionalInformation abbreviation="M.oryzae" link="http://www.uniprot.org/taxonomy/242507"/>
    </notes>
  </species>
  <species name="Thermotoga maritima " NCBITaxId="243274">
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        <gene id="268" protId="Q9WZV3" geneId="dnaJ"/>
        <gene id="270" protId="Q9X026" geneId="TM_0924"/>
        <gene id="273" protId="Q9X0A2" geneId="TM_1009"/>
        <gene id="276" protId="Q9X0Z7" geneId="TM_1270"/>
        <gene id="278" protId="Q9WZF9" geneId="clpP"/>
        <gene id="280" protId="Q9X0G6" geneId="panC"/>
        <gene id="283" protId="Q9WYS2" geneId="TM_0441"/>
        <gene id="286" protId="Q9X1S9" geneId="TM_1593"/>
        <gene id="288" protId="Q9WYA4" geneId="mnmE"/>
        <gene id="290" protId="Q9WXP7" geneId="TM_0040"/>
        <gene id="292" protId="Q9X2G3" geneId="TM_1848"/>
        <gene id="294" protId="Q9WY54" geneId="gcvT"/>
        <gene id="298" protId="Q9WYN3" geneId="TM_0402"/>
        <gene id="300" protId="P96108" geneId="argF"/>
        <gene id="302" protId="G4FH33" geneId="TM_0118"/>
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        <gene id="306" protId="Q9WZQ7" geneId="TM_0800"/>
        <gene id="308" protId="Q9WYJ7" geneId="nfo"/>
        <gene id="310" protId="Q9WZX0" geneId="TM_0866"/>
        <gene id="312" protId="Q9X2I6" geneId="TM_1873"/>
        <gene id="314" protId="Q9WYD4" geneId="TM_0298"/>
        <gene id="316" protId="Q9X248" geneId="fabG"/>
        <gene id="318" protId="Q9X0S8" geneId="TM_1201"/>
        <gene id="320" protId="Q9WYW2" geneId="trpS"/>
        <gene id="322" protId="Q9X055" geneId="TM_0960"/>
        <gene id="324" protId="Q9X1L7" geneId="TM_1531"/>
        <gene id="326" protId="Q9X1I7" geneId="TM_1478"/>
        <gene id="328" protId="P96110" geneId="gdhA"/>
        <gene id="330" protId="Q9X1I8" geneId="adk"/>
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        <gene id="334" protId="P36205" geneId="glnA"/>
        <gene id="336" protId="Q9X0C6" geneId="hisF"/>
        <gene id="338" protId="Q9WZS8" geneId="pheS"/>
        <gene id="351" protId="Q9X051" geneId="rbsA2"/>
        <gene id="352" protId="Q9WXV8" geneId="TM_0103"/>
        <gene id="353" protId="Q9WXX0" geneId="rbsA1"/>
        <gene id="355" protId="Q9S5Y2" geneId="TM_1840"/>
        <gene id="356" protId="P80099" geneId="mgtA"/>
        <gene id="358" protId="Q9X1C0" geneId="TM_1400"/>
        <gene id="360" protId="O33836" geneId="galT"/>
        <gene id="361" protId="Q9WZZ8" geneId="TM_0896"/>
        <gene id="364" protId="Q9WZ08" geneId="TM_0538"/>
        <gene id="366" protId="Q9X0Y2" geneId="aspC"/>
        <gene id="368" protId="Q9WZ23" geneId="leuA"/>
        <gene id="369" protId="Q9WZ22" geneId="TM_0552"/>
        <gene id="371" protId="Q9X2J1" geneId="TM_1878"/>
        <gene id="373" protId="Q9X1B8" geneId="uppS"/>
        <gene id="375" protId="Q9WZI0" geneId="upp"/>
        <gene id="377" protId="Q9WXW6" geneId="TM_0111"/>
        <gene id="378" protId="Q9WZS7" geneId="TM_0820"/>
        <gene id="379" protId="Q9X022" geneId="TM_0920"/>
        <gene id="381" protId="Q9WYI2" geneId="aroC"/>
        <gene id="383" protId="Q9WZS1" geneId="TM_0814"/>
        <gene id="385" protId="Q9WY68" geneId="TM_0225"/>
        <gene id="387" protId="Q9X1X8" geneId="TM_1645"/>
        <gene id="389" protId="Q9WZP4" geneId="TM_0787"/>
        <gene id="391" protId="Q9WZ31" geneId="corA"/>
        <gene id="393" protId="Q9X0I0" geneId="purB"/>
        <gene id="395" protId="P38515" geneId="rplC"/>
        <gene id="397" protId="Q9X1J3" geneId="rpsL"/>
        <gene id="399" protId="Q9WZR4" geneId="TM_0807"/>
        <gene id="402" protId="Q9X283" geneId="TM_1762"/>
        <gene id="405" protId="Q9WYB0" geneId="TM_0273"/>
        <gene id="407" protId="O33833" geneId="bfrA"/>
        <gene id="409" protId="Q9X1A4" geneId="apt"/>
        <gene id="411" protId="Q9WY02" geneId="TM_0155"/>
        <gene id="413" protId="Q9X243" geneId="TM_1718"/>
        <gene id="415" protId="Q9WYX9" geneId="TM_0509"/>
        <gene id="416" protId="Q9WZ98" geneId="TM_0630"/>
        <gene id="418" protId="Q9WXV3" geneId="obg"/>
        <gene id="420" protId="Q9WYZ5" geneId="miaA"/>
        <gene id="423" protId="Q9X0L5" geneId="TM_1131"/>
        <gene id="425" protId="Q9WZW0" geneId="truB"/>
        <gene id="428" protId="Q9WYW0" geneId="cobB"/>
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        <gene id="434" protId="Q9X0H9" geneId="TM_1094"/>
        <gene id="436" protId="Q9WXS3" geneId="TM_0068"/>
        <gene id="438" protId="P56838" geneId="galK"/>
        <gene id="440" protId="Q9X215" geneId="gmk"/>
        <gene id="442" protId="Q9WYE8" geneId="TM_0312"/>
        <gene id="444" protId="Q9WYR4" geneId="pelA"/>
        <gene id="446" protId="Q9WYB8" geneId="TM_0282"/>
        <gene id="448" protId="Q9WYI4" geneId="aroQ"/>
        <gene id="450" protId="Q9WYM3" geneId="TM_0392"/>
        <gene id="452" protId="Q9WYU3" geneId="pdxT"/>
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        <gene id="456" protId="Q9WYU8" geneId="tyrS"/>
        <gene id="458" protId="Q9WZI9" geneId="dtd"/>
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        <gene id="468" protId="Q9X0U1" geneId="TM_1214"/>
        <gene id="470" protId="Q9X255" geneId="ppnK"/>
        <gene id="474" protId="Q9X1T9" geneId="TM_1603"/>
        <gene id="476" protId="Q9WY44" geneId="TM_0201"/>
        <gene id="477" protId="G4FFG1" geneId="TM_1426"/>
        <gene id="479" protId="Q9WY40" geneId="TM_0197"/>
        <gene id="481" protId="P46799" geneId="topA"/>
        <gene id="482" protId="O51934" geneId="rgy"/>
        <gene id="485" protId="Q9WZW6" geneId="TM_0862"/>
        <gene id="489" protId="Q9WZF2" geneId="TM_0686"/>
        <gene id="491" protId="Q9X1L6" geneId="TM_1530"/>
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        <gene id="495" protId="Q9S5X7" geneId="TM_1424"/>
        <gene id="496" protId="Q9WXM7" geneId="TM_0012"/>
        <gene id="498" protId="Q9WZL2" geneId="ubiE"/>
        <gene id="501" protId="Q9WXP9" geneId="TM_0042"/>
        <gene id="503" protId="Q9WXZ2" geneId="gcp"/>
        <gene id="505" protId="P29395" geneId="rplK"/>
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        <gene id="509" protId="Q9WZV0" geneId="TM_0846"/>
        <gene id="511" protId="Q9WYM6" geneId="TM_0395"/>
        <gene id="512" protId="Q9WYL1" geneId="TM_0379"/>
        <gene id="513" protId="Q9WZL3" geneId="TM_0754"/>
        <gene id="516" protId="Q9WZ12" geneId="TM_0542"/>
        <gene id="518" protId="Q9X1U6" geneId="atpG"/>
        <gene id="520" protId="Q9WZS6" geneId="TM_0819"/>
        <gene id="522" protId="Q9X1G5" geneId="rplM"/>
        <gene id="524" protId="Q9ZAE4" geneId="rplF"/>
        <gene id="526" protId="Q9X1E6" geneId="TM_1432"/>
        <gene id="533" protId="Q9X1K9" geneId="dapA"/>
        <gene id="535" protId="P38508" geneId="rplN"/>
        <gene id="537" protId="P29393" geneId="rplA"/>
        <gene id="539" protId="P38516" geneId="rplD"/>
        <gene id="541" protId="Q9X0C9" geneId="hisB"/>
        <gene id="544" protId="O33832" geneId="suhB"/>
        <gene id="546" protId="Q9X0D0" geneId="hisC"/>
        <gene id="548" protId="Q9X0Y0" geneId="nadE2"/>
        <gene id="550" protId="Q9WZM6" geneId="rbgA"/>
        <gene id="552" protId="Q9WYT7" geneId="TM_0466"/>
        <gene id="554" protId="Q9X171" geneId="TM_1350"/>
        <gene id="556" protId="Q9X1K6" geneId="TM_1518"/>
        <gene id="557" protId="Q9WZ17" geneId="TM_0547"/>
        <gene id="559" protId="Q9WZQ5" geneId="TM_0798"/>
        <gene id="564" protId="Q9WZX9" geneId="TM_0876"/>
        <gene id="567" protId="Q9WYC6" geneId="TM_0290"/>
        <gene id="569" protId="Q9X1V6" geneId="TM_1621"/>
        <gene id="591" protId="G4FEX7" geneId="TM_1021"/>
        <gene id="593" protId="Q9X2I5" geneId="TM_1872"/>
        <gene id="595" protId="Q9WZ15" geneId="thrB"/>
        <gene id="597" protId="Q9X1A5" geneId="pgi"/>
        <gene id="602" protId="Q9X085" geneId="TM_0990"/>
        <gene id="604" protId="Q9WYQ9" geneId="TM_0428"/>
        <gene id="606" protId="Q9X2E7" geneId="TM_1827"/>
        <gene id="608" protId="Q9X288" geneId="folD"/>
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        <gene id="621" protId="Q9X0F2" geneId="TM_1062"/>
        <gene id="623" protId="Q9X038" geneId="TM_0940"/>
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        <gene id="628" protId="Q9WZS2" geneId="norM"/>
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        <gene id="631" protId="Q9WZK3" geneId="TM_0744"/>
        <gene id="632" protId="Q9WZ90" geneId="TM_0622"/>
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        <gene id="664" protId="Q9X282" geneId="uvrB"/>
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        <gene id="673" protId="Q9WZM4" geneId="TM_0765"/>
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        <gene id="677" protId="Q9X0M3" geneId="TM_1139"/>
        <gene id="678" protId="Q9WYQ2" geneId="TM_0421"/>
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        <gene id="681" protId="Q9X0N8" geneId="pgl"/>
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        <gene id="685" protId="Q9X2E5" geneId="ribH"/>
        <gene id="687" protId="Q9WYD1" geneId="tal"/>
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        <gene id="791" protId="Q9WYB9" geneId="TM_0283"/>
        <gene id="793" protId="P38526" geneId="rpsG"/>
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        <gene id="797" protId="Q9X0P5" geneId="TM_1162"/>
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        <gene id="809" protId="Q9X1G4" geneId="rpsI"/>
        <gene id="811" protId="Q9WZE7" geneId="TM_0681"/>
        <gene id="813" protId="Q9WYV8" geneId="prmC"/>
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        <gene id="817" protId="Q9X1A7" geneId="coaE"/>
        <gene id="819" protId="Q9WYR8" geneId="TM_0437"/>
        <gene id="822" protId="Q9WXM1" geneId="TM_0006"/>
        <gene id="825" protId="Q9WYK7" geneId="TM_0374"/>
        <gene id="827" protId="Q9X1E9" geneId="TM_1435"/>
        <gene id="829" protId="Q9WXX3" geneId="TM_0119"/>
        <gene id="833" protId="Q9X1K4" geneId="TM_1516"/>
        <gene id="836" protId="Q9X167" geneId="TM_1346"/>
        <gene id="838" protId="Q56308" geneId="pcm"/>
        <gene id="840" protId="Q9X194" geneId="TM_1374"/>
        <gene id="848" protId="Q9X2G1" geneId="TM_1846"/>
        <gene id="850" protId="Q9X0D2" geneId="hisG"/>
        <gene id="852" protId="Q9WZM1" geneId="rpsB"/>
        <gene id="854" protId="P36203" geneId="recA"/>
        <gene id="856" protId="Q9WZ73" geneId="ssb"/>
        <gene id="858" protId="Q9X259" geneId="TM_1737"/>
        <gene id="859" protId="Q9X1T2" geneId="TM_1596"/>
        <gene id="861" protId="P38511" geneId="rplV"/>
        <gene id="865" protId="Q9WXP0" geneId="TM_0033"/>
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        <gene id="880" protId="Q9X1H7" geneId="engB"/>
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    </database>
    <notes>
      <additionalInformation abbreviation="T.maritima" link="http://www.uniprot.org/taxonomy/243274"/>
    </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>
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        <score id="bootstrap" value="1"/>
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      <geneRef id="2">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
    </orthologGroup>
    <orthologGroup id="2">
      <score id="bit" value="685"/>
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        <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="639"/>
      <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>
    </orthologGroup>
    <orthologGroup id="4">
      <score id="bit" value="599"/>
      <geneRef id="7">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="8">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="9">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="10">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
    </orthologGroup>
    <orthologGroup id="5">
      <score id="bit" value="598"/>
      <geneRef id="11">
        <score id="inparalog" value="1"/>
        <score id="bootstrap" value="1"/>
      </geneRef>
      <geneRef id="12">
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