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        <cvParam accession="MS:1001079" name="database type nucleotide" cvRef="PSI-MS" />
      </SearchDatabase>
      <SpectraData location="file:///est_coding_test.mgf" id="SD_1">
        <FileFormat>
          <cvParam accession="MS:1001062" name="Mascot MGF file" cvRef="PSI-MS" />
        </FileFormat>
        <SpectrumIDFormat>
          <cvParam accession="MS:1001528" name="Mascot query number" cvRef="PSI-MS" />
        </SpectrumIDFormat>
      </SpectraData>
    </Inputs>
    <AnalysisData>
      <SpectrumIdentificationList id="SIL_1" numSequencesSearched="18">
	    <FragmentationTable>
          <Measure id="m_mz">
            <cvParam cvRef="PSI-MS" accession="MS:1001225" name="product ion m/z"/>
          </Measure>
          <Measure id="m_intensity">
            <cvParam cvRef="PSI-MS" accession="MS:1001226" name="product ion intensity"/>
          </Measure>
          <Measure id="m_error">
            <cvParam cvRef="PSI-MS" accession="MS:1001227" name="product ion m/z error" unitAccession="MS:1000040" unitName="m/z" unitCvRef="PSI-MS"/>
          </Measure>
        </FragmentationTable>
        <SpectrumIdentificationResult id="SIR_1" spectrumID="query=1" spectraData_ref="SD_1">
          <SpectrumIdentificationItem id="SII_1_1"  calculatedMassToCharge="617.380308" chargeState="1" experimentalMassToCharge="617.380865" peptide_ref="peptide_1_1" rank="1" passThreshold="true">
            <PeptideEvidenceRef peptideEvidence_ref="PE_1_1_gi|90987750_1"/>
            <Fragmentation>
              <IonType index="1 2 3 4" charge="1">
                <FragmentArray values="104.016 217.101 373.202 486.286 " measure_ref="m_mz"/>
                <FragmentArray values="3 3 3 3" measure_ref="m_intensity"/>
                <FragmentArray values="-0.0005 0.0005 0.0004 0.0003" measure_ref="m_error"/>
                <cvParam cvRef="PSI-MS" accession="MS:1001224" name="frag: b ion"/>
              </IonType>
            </Fragmentation>            
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="45.99" />
            <cvParam accession="MS:1001172" name="mascot:expectation value" cvRef="PSI-MS" value="2.51767692775885e-005" />
          </SpectrumIdentificationItem>
          <cvParam accession="MS:1001371" name="mascot:identity threshold"  cvRef="PSI-MS" value="13" />
          <cvParam accession="MS:1001030" name="number of peptide seqs compared to each spectrum"  cvRef="PSI-MS" value="1" />
        </SpectrumIdentificationResult>
        <SpectrumIdentificationResult id="SIR_2" spectrumID="query=2" spectraData_ref="SD_1">
          <SpectrumIdentificationItem id="SII_2_1"  calculatedMassToCharge="839.456266" chargeState="1" experimentalMassToCharge="839.456" peptide_ref="peptide_2_1" rank="1" passThreshold="true">
            <PeptideEvidenceRef peptideEvidence_ref="PE_2_1_gi|152812279_1"/>
            <Fragmentation>
              <IonType index="1 2 3 4 5" charge="1">
                <FragmentArray values="114.091 185.128 341.23 527.309 674.377 " measure_ref="m_mz"/>
                <FragmentArray values="1 2 3 4 5" measure_ref="m_intensity"/>
                <FragmentArray values="-0.0003 -0.0005 0.0004 0.0001 -0.0003" measure_ref="m_error"/>
                <cvParam cvRef="PSI-MS" accession="MS:1001224" name="frag: b ion"/>
              </IonType>
            </Fragmentation>
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="56.16" />
            <cvParam accession="MS:1001172" name="mascot:expectation value" cvRef="PSI-MS" value="2.42102904673618e-006" />
          </SpectrumIdentificationItem>
          <cvParam accession="MS:1001371" name="mascot:identity threshold"  cvRef="PSI-MS" value="13" />
          <cvParam accession="MS:1001030" name="number of peptide seqs compared to each spectrum"  cvRef="PSI-MS" value="2" />
        </SpectrumIdentificationResult>
        <SpectrumIdentificationResult id="SIR_3" spectrumID="query=3" spectraData_ref="SD_1">
          <SpectrumIdentificationItem id="SII_3_1"  calculatedMassToCharge="857.487943" chargeState="1" experimentalMassToCharge="857.488485" peptide_ref="peptide_3_1" rank="1" passThreshold="true">
            <PeptideEvidenceRef peptideEvidence_ref="PE_3_1_gi|5986_4"/>    
            <Fragmentation>
              <IonType index="1 2 3 4 5 6" charge="1">
                <FragmentArray values="72.044 185.128 332.197 461.239 598.298 711.383 " measure_ref="m_mz"/>
                <FragmentArray values="6 6 6 6 6 6" measure_ref="m_intensity"/>
                <FragmentArray values="-0.0004 -0.0005 0.0001 -0.0005 -0.0004 0.0006" measure_ref="m_error"/>
                <cvParam cvRef="PSI-MS" accession="MS:1001224" name="frag: b ion"/>
              </IonType>
            </Fragmentation>
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="70.46" />
            <cvParam accession="MS:1001172" name="mascot:expectation value" cvRef="PSI-MS" value="8.99497581530036e-008" />
          </SpectrumIdentificationItem>
          <cvParam accession="MS:1001371" name="mascot:identity threshold"  cvRef="PSI-MS" value="13" />
          <cvParam accession="MS:1001030" name="number of peptide seqs compared to each spectrum"  cvRef="PSI-MS" value="1" />
          <cvParam accession="MS:1000796" name="spectrum title"  cvRef="PSI-MS" value="ALFEHIK" />
        </SpectrumIdentificationResult>
        <SpectrumIdentificationResult id="SIR_4" spectrumID="query=4" spectraData_ref="SD_1">
          <SpectrumIdentificationItem id="SII_4_1"  calculatedMassToCharge="1015.443937" chargeState="1" experimentalMassToCharge="1015.444455" peptide_ref="peptide_4_1" rank="1" passThreshold="true">
            <PeptideEvidenceRef peptideEvidence_ref="PE_4_1_gi|152812279_2"/>
            <Fragmentation>
              <IonType index="1 2 3 4 5 6 8 9" charge="1">
                <FragmentArray values="129.066 244.093 315.13 372.151 459.183 596.242 754.311 869.338 " measure_ref="m_mz"/>
                <FragmentArray values="2 2 2 2 2 2 2 2" measure_ref="m_intensity"/>
                <FragmentArray values="0.0001 0.0002 0.0001 -0.0004 -0.0004 -0.0003 -0.0005 -0.0004" measure_ref="m_error"/>
                <cvParam cvRef="PSI-MS" accession="MS:1001224" name="frag: b ion"/>
              </IonType>
            </Fragmentation>
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="88.07" />
            <cvParam accession="MS:1001172" name="mascot:expectation value" cvRef="PSI-MS" value="1.55955250282695e-009" />
          </SpectrumIdentificationItem>
          <cvParam accession="MS:1001371" name="mascot:identity threshold"  cvRef="PSI-MS" value="13" />
          <cvParam accession="MS:1001030" name="number of peptide seqs compared to each spectrum"  cvRef="PSI-MS" value="1" />
        </SpectrumIdentificationResult>
      </SpectrumIdentificationList>
      <ProteinDetectionList id="PDL_1">
        <ProteinAmbiguityGroup id="PAG_hit_1" >
          <ProteinDetectionHypothesis id="PDH_gi|152812279_-1" dBSequence_ref="DBSeq_gi|152812279"  passThreshold="true">
            <PeptideHypothesis peptideEvidence_ref="PE_2_1_gi|152812279_1">
              <SpectrumIdentificationItemRef spectrumIdentificationItem_ref="SII_2_1"/>
            </PeptideHypothesis>
            <PeptideHypothesis peptideEvidence_ref="PE_4_1_gi|152812279_2">
              <SpectrumIdentificationItemRef spectrumIdentificationItem_ref="SII_4_1"/>
            </PeptideHypothesis>
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="131.23" />
            <cvParam accession="MS:1001093" name="sequence coverage" cvRef="PSI-MS" value="9" />
            <cvParam accession="MS:1001097" name="distinct peptide sequences" cvRef="PSI-MS" value="2" />
          </ProteinDetectionHypothesis>
        </ProteinAmbiguityGroup>
        <ProteinAmbiguityGroup id="PAG_hit_2" >
          <ProteinDetectionHypothesis id="PDH_gi|5986_4" dBSequence_ref="DBSeq_gi|5986"  passThreshold="true">
            <PeptideHypothesis peptideEvidence_ref="PE_3_1_gi|5986_4">
              <SpectrumIdentificationItemRef spectrumIdentificationItem_ref="SII_3_1"/>
            </PeptideHypothesis>
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="70.46" />
            <cvParam accession="MS:1001093" name="sequence coverage" cvRef="PSI-MS" value="5" />
            <cvParam accession="MS:1001097" name="distinct peptide sequences" cvRef="PSI-MS" value="1" />
          </ProteinDetectionHypothesis>
        </ProteinAmbiguityGroup>
        <ProteinAmbiguityGroup id="PAG_hit_3" >
          <ProteinDetectionHypothesis id="PDH_gi|90987750_1" dBSequence_ref="DBSeq_gi|90987750"  passThreshold="true">
            <PeptideHypothesis peptideEvidence_ref="PE_1_1_gi|90987750_1">
              <SpectrumIdentificationItemRef spectrumIdentificationItem_ref="SII_1_1"/>
            </PeptideHypothesis>            
            <cvParam accession="MS:1001171" name="mascot:score" cvRef="PSI-MS" value="45.99" />
            <cvParam accession="MS:1001093" name="sequence coverage" cvRef="PSI-MS" value="9" />
            <cvParam accession="MS:1001097" name="distinct peptide sequences" cvRef="PSI-MS" value="1" />
          </ProteinDetectionHypothesis>
        </ProteinAmbiguityGroup>
      </ProteinDetectionList>
    </AnalysisData>
  </DataCollection>
  <BibliographicReference authors="David N. Perkins, Darryl J. C. Pappin, David M. Creasy, John S. Cottrell" editor="" id="10.1002/(SICI)1522-2683(19991201)20:18&lt;3551::AID-ELPS3551&gt;3.0.CO;2-2" name="Probability-based protein identification by searching sequence databases using mass spectrometry data" issue="18" pages="3551-3567" publication="Electrophoresis" volume="20" year="1999" publisher="Wiley VCH" title="Probability-based protein identification by searching sequence databases using mass spectrometry data"/>
</MzIdentML>