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comparison test-data/PeptideShaker_tiny.mzid @ 2:68d8c9e521d7 draft

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planemo upload for repository https://github.com/iracooke/protk-galaxytools/blob/master/protk-proteogenomics/.shed.yml commit 24e0fef2496984648a8a5cd5bff4d6b9b634a302-dirty
author iracooke
date Tue, 20 Oct 2015 20:34:50 -0400
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1:a85c8de9630a 2:68d8c9e521d7
1 <?xml version="1.0" encoding="utf-8"?>
2 <MzIdentML xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
3 xmlns="http://psidev.info/psi/pi/mzIdentML/1.1"
4 id="PeptideShaker v0.38.2"
5 xsi:schemaLocation="http://psidev.info/psi/pi/mzIdentML/1.1 http://www.psidev.info/files/mzIdentML1.1.0.xsd"
6 version="1.1.0" creationDate="2015-05-07T01:24:08">
7 <cvList>
8 <cv id="PSI-MS"
9 uri="http://psidev.cvs.sourceforge.net/viewvc/*checkout*/psidev/psi/psi-ms/mzML/controlledVocabulary/psi-ms.obo"
10 version="3.73.0" fullName="PSI-MS" />
11 <cv id="UNIMOD" uri="http://www.unimod.org/obo/unimod.obo"
12 fullName="UNIMOD" />
13 <cv id="UO"
14 uri="http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/phenotype/unit.obo"
15 fullName="UNIT-ONTOLOGY" />
16 <cv id="PRIDE"
17 uri="http://code.google.com/p/ebi-pride/source/browse/trunk/pride-core/schema/pride_cv.obo"
18 fullName="PRIDE" />
19 </cvList>
20 <AnalysisSoftwareList>
21 <AnalysisSoftware name="PeptideShaker" version="0.38.2"
22 id="ID_software" uri="http://peptide-shaker.googlecode.com">
23 <ContactRole contact_ref="PS_DEV">
24 <Role>
25 <cvParam cvRef="PSI-MS" accession="MS:1001267"
26 name="software vendor" value="CompOmics" />
27 </Role>
28 </ContactRole>
29 <SoftwareName>
30 <cvParam cvRef="PSI-MS" accession="MS:1002458"
31 name="PeptideShaker" />
32 </SoftwareName>
33 <Customizations>No customisations</Customizations>
34 </AnalysisSoftware>
35 </AnalysisSoftwareList>
36 <Provider id="PROVIDER">
37 <ContactRole contact_ref="PROVIDER">
38 <Role>
39 <cvParam cvRef="PSI-MS" accession="MS:1001271"
40 name="researcher" />
41 </Role>
42 </ContactRole>
43 </Provider>
44 <AuditCollection>
45 <Person firstName="Proteomics" lastName="Galaxy" id="PROVIDER">
46 <cvParam cvRef="PSI-MS" accession="MS:1000587"
47 name="contact address" value="galaxyp@umn.edu" />
48 <cvParam cvRef="PSI-MS" accession="MS:1000589"
49 name="contact email" value="galaxyp@umn.edu" />
50 <Affiliation organization_ref="ORG_DOC_OWNER" />
51 </Person>
52 <Organization name="University of Minnesota"
53 id="ORG_DOC_OWNER">
54 <cvParam cvRef="PSI-MS" accession="MS:1000586"
55 name="contact name" value="University of Minnesota" />
56 <cvParam cvRef="PSI-MS" accession="MS:1000587"
57 name="contact address"
58 value="Minneapolis, MN 55455, Vereinigte Staaten" />
59 <cvParam cvRef="PSI-MS" accession="MS:1000589"
60 name="contact email" value="galaxyp@umn.edu" />
61 </Organization>
62 <Organization name="PeptideShaker developers" id="PS_DEV">
63 <cvParam cvRef="PSI-MS" accession="MS:1000586"
64 name="contact name" value="PeptideShaker developers" />
65 <cvParam cvRef="PSI-MS" accession="MS:1000587"
66 name="contact address"
67 value="Proteomics Unit, Building for Basic Biology, University of Bergen, Jonas Liesvei 91, N-5009 Bergen, Norway" />
68 <cvParam cvRef="PSI-MS" accession="MS:1000588"
69 name="contact url"
70 value="http://peptide-shaker.googlecode.com" />
71 <cvParam cvRef="PSI-MS" accession="MS:1000589"
72 name="contact email"
73 value="peptide-shaker@googlegroups.com" />
74 </Organization>
75 </AuditCollection>
76 <SequenceCollection>
77 <DBSequence id="JEMP01000193.1_rev_g3500.t1"
78 accession="JEMP01000193.1_rev_g3500.t1"
79 searchDatabase_ref="SearchDB_1">
80 <cvParam cvRef="PSI-MS" accession="MS:1001088"
81 name="protein description" value="280755|283436" />
82 </DBSequence>
83 <DBSequence id="JEMP01000061.1_rev_g10170.t1"
84 accession="JEMP01000061.1_rev_g10170.t1"
85 searchDatabase_ref="SearchDB_1">
86 <cvParam cvRef="PSI-MS" accession="MS:1001088"
87 name="protein description" value="36066|38753" />
88 </DBSequence>
89 <Peptide id="KSPVYKVHFTR">
90 <PeptideSequence>KSPVYKVHFTR</PeptideSequence>
91 </Peptide>
92 <Peptide id="SKIPFIVIFDPIEAAR">
93 <PeptideSequence>SQIPFLVLFDPIEAAR</PeptideSequence>
94 </Peptide>
95 <Peptide id="SSGNWINIFNPATPSFR">
96 <PeptideSequence>SSGNWLNLFNPATPSFR</PeptideSequence>
97 </Peptide>
98 <Peptide id="GGIDSWNAIGYIPVKDFDYK">
99 <PeptideSequence>GGIDSWNALGYIPVQDFDYK</PeptideSequence>
100 </Peptide>
101 <Peptide id="GKSGNPMIMIDITDISDSR">
102 <PeptideSequence>GQSGNPMLMLDLTDLSDSR</PeptideSequence>
103 </Peptide>
104 <Peptide id="TIEYSYNDFCISEMAAGIGGR">
105 <PeptideSequence>TLEYSYNDFCISEMAAGLGGR</PeptideSequence>
106 <Modification monoisotopicMassDelta="57.021464" residues="C"
107 location="10">
108 <cvParam cvRef="UNIMOD" accession="UNIMOD:4"
109 name="Carbamidomethyl" value="57.021464" />
110 </Modification>
111 </Peptide>
112 <Peptide id="TAIFNFRFPK">
113 <PeptideSequence>TALFNFRFPK</PeptideSequence>
114 </Peptide>
115 <Peptide id="NWIGHEFFIK">
116 <PeptideSequence>NWIGHEFFLK</PeptideSequence>
117 </Peptide>
118 <Peptide id="TWGFKDPIGCSKIDEK">
119 <PeptideSequence>TWGFQDPLGCSQIDEK</PeptideSequence>
120 <Modification monoisotopicMassDelta="57.021464" residues="C"
121 location="10">
122 <cvParam cvRef="UNIMOD" accession="UNIMOD:4"
123 name="Carbamidomethyl" value="57.021464" />
124 </Modification>
125 </Peptide>
126 <Peptide id="DGHVFAGASIPYGIAK">
127 <PeptideSequence>DGHVFAGASLPYGLAK</PeptideSequence>
128 </Peptide>
129 <Peptide id="SIIDTYKHEGWIPDCR">
130 <PeptideSequence>SLIDTYKHEGWLPDCR</PeptideSequence>
131 <Modification monoisotopicMassDelta="57.021464" residues="C"
132 location="15">
133 <cvParam cvRef="UNIMOD" accession="UNIMOD:4"
134 name="Carbamidomethyl" value="57.021464" />
135 </Modification>
136 </Peptide>
137 <Peptide id="DATVEPFDWCCKGR">
138 <PeptideSequence>DATVEPFDWCCQGR</PeptideSequence>
139 <Modification monoisotopicMassDelta="57.021464" residues="C"
140 location="10">
141 <cvParam cvRef="UNIMOD" accession="UNIMOD:4"
142 name="Carbamidomethyl" value="57.021464" />
143 </Modification>
144 <Modification monoisotopicMassDelta="57.021464" residues="C"
145 location="11">
146 <cvParam cvRef="UNIMOD" accession="UNIMOD:4"
147 name="Carbamidomethyl" value="57.021464" />
148 </Modification>
149 </Peptide>
150 <Peptide id="IVNNIAVEMTTAR">
151 <PeptideSequence>LVNNIAVEMTTAR</PeptideSequence>
152 </Peptide>
153 <Peptide id="IYDTGIFANSR">
154 <PeptideSequence>IYDTGIFANSR</PeptideSequence>
155 </Peptide>
156 <Peptide id="SINGYPIPGGGTVR">
157 <PeptideSequence>SINGYPLPGGGTVR</PeptideSequence>
158 </Peptide>
159 <Peptide id="FEPPAKETDPITAR">
160 <PeptideSequence>FEPPAKETDPITAR</PeptideSequence>
161 </Peptide>
162 <Peptide id="ENIDWNEGYK">
163 <PeptideSequence>ENIDWNEGYK</PeptideSequence>
164 </Peptide>
165 <Peptide id="RAHYYVPR">
166 <PeptideSequence>RAHYYVPR</PeptideSequence>
167 </Peptide>
168 <PeptideEvidence isDecoy="false" pre="K" post="G" start="712"
169 end="722" peptide_ref="KSPVYKVHFTR"
170 dBSequence_ref="JEMP01000193.1_rev_g3500.t1" id="PepEv_1" />
171 <PeptideEvidence isDecoy="false" pre="R" post="E" start="552"
172 end="568" peptide_ref="SSGNWINIFNPATPSFR"
173 dBSequence_ref="JEMP01000061.1_rev_g10170.t1" id="PepEv_232" />
174 <PeptideEvidence isDecoy="false" pre="R" post="G" start="491"
175 end="510" peptide_ref="GGIDSWNAIGYIPVKDFDYK"
176 dBSequence_ref="JEMP01000061.1_rev_g10170.t1" id="PepEv_266" />
177 <PeptideEvidence isDecoy="false" pre="K" post="Q" start="192"
178 end="210" peptide_ref="GKSGNPMIMIDITDISDSR"
179 dBSequence_ref="JEMP01000061.1_rev_g10170.t1" id="PepEv_532" />
180 <PeptideEvidence isDecoy="false" pre="R" post="Q" start="522"
181 end="542" peptide_ref="TIEYSYNDFCISEMAAGIGGR"
182 dBSequence_ref="JEMP01000061.1_rev_g10170.t1" id="PepEv_663" />
183 <PeptideEvidence isDecoy="false" pre="R" post="G" start="182"
184 end="191" peptide_ref="TAIFNFRFPK"
185 dBSequence_ref="JEMP01000061.1_rev_g10170.t1" id="PepEv_963" />
186 <PeptideEvidence isDecoy="false" pre="K" post="G" start="783"
187 end="792" peptide_ref="NWIGHEFFIK"
188 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
189 id="PepEv_1108" />
190 <PeptideEvidence isDecoy="false" pre="R" post="G" start="591"
191 end="606" peptide_ref="TWGFKDPIGCSKIDEK"
192 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
193 id="PepEv_1474" />
194 <PeptideEvidence isDecoy="false" pre="K" post="A" start="67"
195 end="82" peptide_ref="DGHVFAGASIPYGIAK"
196 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
197 id="PepEv_1796" />
198 <PeptideEvidence isDecoy="false" pre="R" post="M" start="420"
199 end="435" peptide_ref="SIIDTYKHEGWIPDCR"
200 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
201 id="PepEv_1829" />
202 <PeptideEvidence isDecoy="false" pre="K" post="G" start="477"
203 end="490" peptide_ref="DATVEPFDWCCKGR"
204 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
205 id="PepEv_1958" />
206 <PeptideEvidence isDecoy="false" pre="K" post="R" start="168"
207 end="180" peptide_ref="IVNNIAVEMTTAR"
208 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
209 id="PepEv_2003" />
210 <PeptideEvidence isDecoy="false" pre="K" post="A" start="253"
211 end="263" peptide_ref="IYDTGIFANSR"
212 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
213 id="PepEv_2093" />
214 <PeptideEvidence isDecoy="false" pre="R" post="F" start="276"
215 end="289" peptide_ref="SINGYPIPGGGTVR"
216 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
217 id="PepEv_2130" />
218 <PeptideEvidence isDecoy="false" pre="R" post="V" start="290"
219 end="303" peptide_ref="FEPPAKETDPITAR"
220 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
221 id="PepEv_2202" />
222 <PeptideEvidence isDecoy="false" pre="K" post="A" start="463"
223 end="472" peptide_ref="ENIDWNEGYK"
224 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
225 id="PepEv_2204" />
226 <PeptideEvidence isDecoy="false" pre="K" post="E" start="688"
227 end="695" peptide_ref="RAHYYVPR"
228 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
229 id="PepEv_2444" />
230 <PeptideEvidence isDecoy="false" pre="R" post="M" start="401"
231 end="416" peptide_ref="SKIPFIVIFDPIEAAR"
232 dBSequence_ref="JEMP01000061.1_rev_g10170.t1"
233 id="PepEv_3117" />
234 </SequenceCollection>
235 <AnalysisCollection>
236 <SpectrumIdentification spectrumIdentificationList_ref="SIL_1"
237 spectrumIdentificationProtocol_ref="SearchProtocol_1"
238 id="SpecIdent_1">
239 <InputSpectra spectraData_ref="ma201_Vp_1-10.mzML.mgf" />
240 <InputSpectra spectraData_ref="ma201_Vp_11-20.mzML.mgf" />
241 <SearchDatabaseRef searchDatabase_ref="SearchDB_1" />
242 </SpectrumIdentification>
243 <ProteinDetection proteinDetectionProtocol_ref="PeptideShaker_1"
244 proteinDetectionList_ref="Protein_groups" id="PD_1">
245 <InputSpectrumIdentifications spectrumIdentificationList_ref="SIL_1" />
246 </ProteinDetection>
247 </AnalysisCollection>
248 <AnalysisProtocolCollection>
249 <SpectrumIdentificationProtocol analysisSoftware_ref="ID_software"
250 id="SearchProtocol_1">
251 <SearchType>
252 <cvParam cvRef="PSI-MS" accession="MS:1001083"
253 name="ms-ms search" />
254 </SearchType>
255 <AdditionalSearchParams>
256 <cvParam cvRef="PSI-MS" accession="MS:1001211"
257 name="parent mass type mono" />
258 <cvParam cvRef="PSI-MS" accession="MS:1001256"
259 name="fragment mass type mono" />
260 </AdditionalSearchParams>
261 <ModificationParams>
262 <SearchModification residues="C" massDelta="57.021464"
263 fixedMod="true">
264 <cvParam cvRef="PSI-MS" accession="MS:1001460"
265 name="unknown modification" />
266 <cvParam cvRef="PSI-MS" accession="MS:1002504"
267 name="modification index" value="0" />
268 </SearchModification>
269 <SearchModification residues="M" massDelta="15.994915"
270 fixedMod="false">
271 <cvParam cvRef="PSI-MS" accession="MS:1001460"
272 name="unknown modification" />
273 <cvParam cvRef="PSI-MS" accession="MS:1002504"
274 name="modification index" value="1" />
275 </SearchModification>
276 </ModificationParams>
277 <Enzymes independent="false">
278 <Enzyme missedCleavages="2" semiSpecific="false" id="Enz1"
279 name="Trypsin">
280 <EnzymeName>
281 <cvParam cvRef="PSI-MS" accession="MS:1001251"
282 name="Trypsin" />
283 </EnzymeName>
284 </Enzyme>
285 </Enzymes>
286 <FragmentTolerance>
287 <cvParam accession="MS:1001412" cvRef="PSI-MS"
288 unitCvRef="UO" unitName="dalton" unitAccession="UO:0000221"
289 value="0.2" name="search tolerance plus value" />
290 <cvParam accession="MS:1001413" cvRef="PSI-MS"
291 unitCvRef="UO" unitName="dalton" unitAccession="UO:0000221"
292 value="0.2" name="search tolerance minus value" />
293 </FragmentTolerance>
294 <ParentTolerance>
295 <cvParam accession="MS:1001412" cvRef="PSI-MS"
296 unitCvRef="UO" unitName="parts per million"
297 unitAccession="UO:0000169" value="50.0"
298 name="search tolerance plus value" />
299 <cvParam accession="MS:1001413" cvRef="PSI-MS"
300 unitCvRef="UO" unitName="parts per million"
301 unitAccession="UO:0000169" value="50.0"
302 name="search tolerance minus value" />
303 </ParentTolerance>
304 <Threshold>
305 <cvParam cvRef="PSI-MS" accession="MS:1001364"
306 name="distinct peptide-level global FDR" value="1.0" />
307 <cvParam cvRef="PSI-MS" accession="MS:1002350"
308 name="PSM-level global FDR" value="1.0" />
309 <cvParam cvRef="PSI-MS" accession="MS:1002557"
310 name="D-score threshold" value="95.0" />
311 </Threshold>
312 </SpectrumIdentificationProtocol>
313 <ProteinDetectionProtocol analysisSoftware_ref="ID_software"
314 id="PeptideShaker_1">
315 <Threshold>
316 <cvParam cvRef="PSI-MS" accession="MS:1002369"
317 name="protein group-level global FDR" value="0.01" />
318 </Threshold>
319 </ProteinDetectionProtocol>
320 </AnalysisProtocolCollection>
321 <DataCollection>
322 <Inputs>
323 <SourceFile location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/searchgui_input_PeptideShaker_temp/ma201_Vp_1-10.mzML.comet.pep.xml"
324 id="SourceFile_1">
325 <FileFormat>
326 <cvParam cvRef="PSI-MS" accession="MS:1001421"
327 name="pepXML format" />
328 </FileFormat>
329 </SourceFile>
330 <SourceFile location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/searchgui_input_PeptideShaker_temp/ma201_Vp_1-10.mzML.msgf.mzid"
331 id="SourceFile_2">
332 <FileFormat>
333 <cvParam cvRef="PSI-MS" accession="MS:1002073"
334 name="mzIdentML format" />
335 </FileFormat>
336 </SourceFile>
337 <SourceFile location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/searchgui_input_PeptideShaker_temp/ma201_Vp_11-20.mzML.comet.pep.xml"
338 id="SourceFile_3">
339 <FileFormat>
340 <cvParam cvRef="PSI-MS" accession="MS:1001421"
341 name="pepXML format" />
342 </FileFormat>
343 </SourceFile>
344 <SourceFile location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/searchgui_input_PeptideShaker_temp/ma201_Vp_11-20.mzML.msgf.mzid"
345 id="SourceFile_4">
346 <FileFormat>
347 <cvParam cvRef="PSI-MS" accession="MS:1002073"
348 name="mzIdentML format" />
349 </FileFormat>
350 </SourceFile>
351 <SearchDatabase numDatabaseSequences="23866"
352 location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/peptideshaker_output_PeptideShaker_temp/data/input_database.fasta"
353 id="SearchDB_1">
354 <FileFormat>
355 <cvParam cvRef="PSI-MS" accession="MS:1001348"
356 name="FASTA format" />
357 </FileFormat>
358 <DatabaseName>
359 <userParam name="input_database.fasta" />
360 </DatabaseName>
361 <cvParam cvRef="PSI-MS" accession="MS:1001073"
362 name="database type amino acid" />
363 </SearchDatabase>
364 <SpectraData location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/peptideshaker_output_PeptideShaker_temp/data/ma201_Vp_1-10.mzML.mgf"
365 id="ma201_Vp_1-10.mzML.mgf" name="ma201_Vp_1-10.mzML.mgf">
366 <FileFormat>
367 <cvParam cvRef="PSI-MS" accession="MS:1001062"
368 name="Mascot MGF file" />
369 </FileFormat>
370 <SpectrumIDFormat>
371 <cvParam cvRef="PSI-MS" accession="MS:1000774"
372 name="multiple peak list nativeID format" />
373 </SpectrumIDFormat>
374 </SpectraData>
375 <SpectraData location="/data/galaxy/galaxy/database/job_working_directory/018/18515/PeptideShakerCLI/.PeptideShaker_unzip_temp/peptideshaker_output_PeptideShaker_temp/data/ma201_Vp_11-20.mzML.mgf"
376 id="ma201_Vp_11-20.mzML.mgf" name="ma201_Vp_11-20.mzML.mgf">
377 <FileFormat>
378 <cvParam cvRef="PSI-MS" accession="MS:1001062"
379 name="Mascot MGF file" />
380 </FileFormat>
381 <SpectrumIDFormat>
382 <cvParam cvRef="PSI-MS" accession="MS:1000774"
383 name="multiple peak list nativeID format" />
384 </SpectrumIDFormat>
385 </SpectraData>
386 </Inputs>
387 <AnalysisData>
388 <SpectrumIdentificationList id="SIL_1">
389 <FragmentationTable>
390 <Measure id="Measure_MZ">
391 <cvParam unitCvRef="PSI-MS" accession="MS:1001225"
392 cvRef="PSI-MS" unitName="m/z"
393 unitAccession="MS:1000040" name="product ion m/z" />
394 </Measure>
395 <Measure id="Measure_Int">
396 <cvParam accession="MS:1001226" cvRef="PSI-MS"
397 name="product ion intensity" />
398 </Measure>
399 <Measure id="Measure_Error">
400 <cvParam unitCvRef="PSI-MS" accession="MS:1001227"
401 cvRef="PSI-MS" unitName="m/z"
402 unitAccession="MS:1000040"
403 name="product ion m/z error" />
404 </Measure>
405 </FragmentationTable>
406 <SpectrumIdentificationResult spectraData_ref="ma201_Vp_1-10.mzML.mgf"
407 spectrumID="index=3152" id="SIR_1">
408 <SpectrumIdentificationItem passThreshold="false"
409 rank="1" peptide_ref="KSPVYKVHFTR"
410 calculatedMassToCharge="1360.7615466836999"
411 experimentalMassToCharge="1362.805053710938"
412 chargeState="1" id="SII_1_1">
413 <PeptideEvidenceRef peptideEvidence_ref="PepEv_1" />
414 <Fragmentation>
415 <IonType charge="1" index="1 4">
416 <FragmentArray measure_ref="Measure_MZ"
417 values="175.2081208 560.3388993" />
418 <FragmentArray measure_ref="Measure_Int"
419 values="94.0459823608 116.2766723633" />
420 <FragmentArray measure_ref="Measure_Error"
421 values="0.08916864948798775 0.0449421494880653" />
422 <cvParam cvRef="PSI-MS" accession="MS:1001220"
423 name="frag: y ion" />
424 </IonType>
425 </Fragmentation>
426 <cvParam cvRef="PSI-MS" accession="MS:1002466"
427 name="PeptideShaker PSM score" value="0.0" />
428 <cvParam cvRef="PSI-MS" accession="MS:1002467"
429 name="PeptideShaker PSM confidence" value="0.0" />
430 <cvParam cvRef="PSI-MS" accession="MS:1002052"
431 name="MS-GF:SpecEValue" value="1.4757611E-6" />
432 <cvParam cvRef="PSI-MS" accession="MS:1001117"
433 name="theoretical mass" value="1360.7615466836999" />
434 <cvParam cvRef="PSI-MS" accession="MS:1002543"
435 name="PeptideShaker PSM confidence type"
436 value="Not Validated" />
437 </SpectrumIdentificationItem>
438 <cvParam cvRef="PSI-MS" accession="MS:1000796"
439 name="spectrum title"
440 value="Suresh Vp 1 to 10_BAF.3535.3535.1" />
441 <cvParam cvRef="PSI-MS" accession="MS:1000894"
442 name="retention time" value="6855.00001" unitCvRef="UO"
443 unitAccession="UO:0000010" unitName="seconds" />
444 </SpectrumIdentificationResult>
445 <SpectrumIdentificationResult spectraData_ref="ma201_Vp_1-10.mzML.mgf"
446 spectrumID="index=3148" id="SIR_5">
447 <SpectrumIdentificationItem passThreshold="true" rank="1"
448 peptide_ref="SKIPFIVIFDPIEAAR"
449 calculatedMassToCharge="1814.9930716837"
450 experimentalMassToCharge="1816.015747070313"
451 chargeState="1" id="SII_5_1">
452 <PeptideEvidenceRef peptideEvidence_ref="PepEv_3117" />
453 <Fragmentation>
454 <IonType charge="1" index="2 3 4 5 6">
455 <FragmentArray measure_ref="Measure_MZ"
456 values="216.0671564 329.0897438 426.082943 573.1137528 686.1894091" />
457 <FragmentArray measure_ref="Measure_Int"
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1718 name="protein group passes threshold" value="true" />
1719 </ProteinAmbiguityGroup>
1720 <cvParam cvRef="PSI-MS" accession="MS:1002404"
1721 name="count of identified proteins" value="612" />
1722 </ProteinDetectionList>
1723 </AnalysisData>
1724 </DataCollection>
1725 </MzIdentML>