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comparison test-data/mr176-BSA100fmole_BA3_01_8168.d_tandem.pep.xml @ 14:d90c8bc10a9c draft

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Docker support and update for protk 1.4
author iracooke
date Thu, 26 Mar 2015 19:55:19 -0400
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13:b793fe628648 14:d90c8bc10a9c
1 <?xml version="1.0" encoding="UTF-8"?>
2 <?xml-stylesheet type="text/xsl" href="pepXML_std.xsl"?>
3 <msms_pipeline_analysis date="2014-06-22T13:57:05" summary_xml="/Users/icooke/Desktop/iptest/mr176-BSA100fmole_BA3_01_8168.d_tandem.pep.xml" xmlns="http://regis-web.systemsbiology.net/pepXML" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://sashimi.sourceforge.net/schema_revision/pepXML/pepXML_v117.xsd">
4 <msms_run_summary base_name="mr176-BSA100fmole_BA3_01_8168.d_tandem" search_engine="X! Tandem" raw_data_type="raw" raw_data=".?">
5 <sample_enzyme name="trypsin">
6 <specificity cut="KR" no_cut="P" sense="C"/>
7 </sample_enzyme>
8 <search_summary base_name="mr176-BSA100fmole_BA3_01_8168.d_tandem" search_engine="X! Tandem" precursor_mass_type="monoisotopic" fragment_mass_type="monoisotopic" search_id="1">
9 <search_database local_path="/Users/icooke/Desktop/iptest/AASequences.fasta" type="AA"/>
10 <enzymatic_search_constraint enzyme="trypsin" max_num_internal_cleavages="2" min_number_termini="1" />
11 <aminoacid_modification aminoacid="E" massdiff="-18.0106" mass="111.0320" variable="Y" symbol="^" /><!--X! Tandem n-terminal AA variable modification-->
12 <aminoacid_modification aminoacid="M" massdiff="15.9949" mass="147.0354" variable="Y" />
13 <aminoacid_modification aminoacid="Q" massdiff="-17.0265" mass="111.0321" variable="Y" symbol="^" /><!--X! Tandem n-terminal AA variable modification-->
14 <terminal_modification terminus="n" massdiff="42.0106" mass="43.0184" protein_terminus="N" variable="Y" symbol="^" /><!--X! Tandem n-terminal AA variable modification-->
15
16 <!-- Input parameters -->
17 <parameter name="list path, default parameters" value="/Users/icooke/.rvm/gems/ruby-2.0.0-p353/gems/protk-1.2.6.pre6/lib/protk/data/tandem_isb_native_defaults.xml"/>
18 <parameter name="list path, taxonomy information" value="/Users/icooke/Desktop/iptest/mr176-BSA100fmole_BA3_01_8168.d_tandem.taxonomy.xml"/>
19 <parameter name="output, histogram column width" value="30"/>
20 <parameter name="output, histograms" value="no"/>
21 <parameter name="output, log path" value=""/>
22 <parameter name="output, maximum valid expectation value" value="0.1"/>
23 <parameter name="output, message" value="1234567890"/>
24 <parameter name="output, one sequence copy" value="no"/>
25 <parameter name="output, parameters" value="yes"/>
26 <parameter name="output, path" value="/Users/icooke/Desktop/iptest/mr176-BSA100fmole_BA3_01_8168.d_tandem"/>
27 <parameter name="output, path hashing" value="no"/>
28 <parameter name="output, performance" value="yes"/>
29 <parameter name="output, proteins" value="yes"/>
30 <parameter name="output, results" value="all"/>
31 <parameter name="output, sequence path" value=""/>
32 <parameter name="output, sequences" value="no"/>
33 <parameter name="output, sort results by" value="spectrum"/>
34 <parameter name="output, spectra" value="no"/>
35 <parameter name="output, xsl path" value="tandem-style.xsl"/>
36 <parameter name="protein, C-terminal residue modification mass" value=""/>
37 <parameter name="protein, N-terminal residue modification mass" value=""/>
38 <parameter name="protein, cleavage C-terminal mass change" value=""/>
39 <parameter name="protein, cleavage N-terminal mass change" value=""/>
40 <parameter name="protein, cleavage semi" value="yes"/>
41 <parameter name="protein, cleavage site" value="[RK]|{P}"/>
42 <parameter name="protein, homolog management" value="no"/>
43 <parameter name="protein, modified residue mass file" value=""/>
44 <parameter name="protein, quick acetyl" value="yes"/>
45 <parameter name="protein, taxon" value="AASequences.fasta"/>
46 <parameter name="refine" value="no"/>
47 <parameter name="refine, maximum valid expectation value" value="0.1"/>
48 <parameter name="refine, sequence path" value=""/>
49 <parameter name="refine, spectrum synthesis" value="yes"/>
50 <parameter name="residue, modification mass" value=""/>
51 <parameter name="residue, potential modification mass" value="15.994915@M"/>
52 <parameter name="residue, potential modification motif" value=""/>
53 <parameter name="scoring, a ions" value="no"/>
54 <parameter name="scoring, b ions" value="yes"/>
55 <parameter name="scoring, c ions" value="no"/>
56 <parameter name="scoring, cyclic permutation" value="no"/>
57 <parameter name="scoring, include reverse" value="no"/>
58 <parameter name="scoring, maximum missed cleavage sites" value="2"/>
59 <parameter name="scoring, minimum ion count" value="4"/>
60 <parameter name="scoring, x ions" value="no"/>
61 <parameter name="scoring, y ions" value="yes"/>
62 <parameter name="scoring, z ions" value="no"/>
63 <parameter name="spectrum, dynamic range" value="100.0"/>
64 <parameter name="spectrum, fragment mass type" value="monoisotopic"/>
65 <parameter name="spectrum, fragment monoisotopic mass error" value="0.4"/>
66 <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/>
67 <parameter name="spectrum, maximum parent charge" value="5"/>
68 <parameter name="spectrum, minimum fragment mz" value="50.0"/>
69 <parameter name="spectrum, minimum parent m+h" value="600.0"/>
70 <parameter name="spectrum, minimum peaks" value="6"/>
71 <parameter name="spectrum, parent monoisotopic mass error minus" value="100.0"/>
72 <parameter name="spectrum, parent monoisotopic mass error plus" value="100.0"/>
73 <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/>
74 <parameter name="spectrum, parent monoisotopic mass isotope error" value="no"/>
75 <parameter name="spectrum, path" value="/Users/icooke/Desktop/iptest/mr176-BSA100fmole_BA3_01_8168.d.mgf"/>
76 <parameter name="spectrum, sequence batch size" value="1000"/>
77 <parameter name="spectrum, threads" value="1"/>
78 <parameter name="spectrum, total peaks" value="50"/>
79 <parameter name="spectrum, use conditioning" value="yes"/>
80 <parameter name="spectrum, use noise suppression" value="no"/>
81 <!-- Unused input parameters -->
82 <parameter name="protein, use minimal annotations" value="yes"/>
83 <parameter name="refine, modification mass" value=""/>
84 <parameter name="refine, point mutations" value="no"/>
85 <parameter name="refine, potential C-terminus modifications" value=""/>
86 <parameter name="refine, potential N-terminus modifications" value=""/>
87 <parameter name="refine, potential modification mass" value=""/>
88 <parameter name="refine, potential modification motif" value=""/>
89 <parameter name="refine, tic percent" value="10"/>
90 <parameter name="refine, unanticipated cleavage" value="no"/>
91 <parameter name="refine, use potential modifications for full refinement" value="no"/>
92 <parameter name="scoring, pluggable scoring" value="no"/>
93 <parameter name="spectrum, maximum parent m+h" value="4000.0"/>
94 <!-- Performance parameters -->
95 <parameter name="list path, sequence source #1" value="/Users/icooke/Desktop/iptest/AASequences.fasta"/>
96 <parameter name="list path, sequence source description #1" value="no description"/>
97 <parameter name="modelling, duplicate peptide ids" value="0"/>
98 <parameter name="modelling, duplicate proteins" value="0"/>
99 <parameter name="modelling, total peptides used" value="542390"/>
100 <parameter name="modelling, total proteins used" value="33"/>
101 <parameter name="modelling, total spectra used" value="118"/>
102 <parameter name="process, start time" value="2014:06:22:13:57:05"/>
103 <parameter name="process, version" value="X! Tandem Sledgehammer (2013.09.01.1)"/>
104 <parameter name="quality values" value="12 10 7 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0"/>
105 <parameter name="refining, # input models" value="0"/>
106 <parameter name="refining, # input spectra" value="0"/>
107 <parameter name="refining, # partial cleavage" value="0"/>
108 <parameter name="refining, # point mutations" value="0"/>
109 <parameter name="refining, # potential C-terminii" value="0"/>
110 <parameter name="refining, # potential N-terminii" value="0"/>
111 <parameter name="refining, # unanticipated cleavage" value="0"/>
112 <parameter name="timing, initial modelling total (sec)" value="0.63"/>
113 <parameter name="timing, initial modelling/spectrum (sec)" value="0.0053"/>
114 <parameter name="timing, load sequence models (sec)" value="0.00"/>
115 <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/>
116 </search_summary>
117
118 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00001.00001.2" start_scan="1" end_scan="1" precursor_neutral_mass="1442.6899" assumed_charge="2" index="1">
119 <search_result>
120 <search_hit hit_rank="1" peptide="DLIRQQCYLFN" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|Q26604|SMOX5_SCHMA" protein_descr="Homeobox protein SMOX-5 OS=Schistosoma mansoni GN=SMOX-5 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="20" calc_neutral_pep_mass="1393.6817" massdiff="49.008" num_tol_term="1" num_missed_cleavages="1" is_rejected="0">
121 <search_score name="hyperscore" value="19.0"/>
122 <search_score name="nextscore" value="19.0"/>
123 <search_score name="bscore" value="3.2"/>
124 <search_score name="yscore" value="10.7"/>
125 <search_score name="cscore" value="0"/>
126 <search_score name="zscore" value="0"/>
127 <search_score name="ascore" value="0"/>
128 <search_score name="xscore" value="0"/>
129 <search_score name="expect" value="2.1"/>
130 </search_hit>
131 </search_result>
132 </spectrum_query>
133 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00002.00002.3" start_scan="2" end_scan="2" precursor_neutral_mass="1248.6649" assumed_charge="3" index="2">
134 <search_result>
135 <search_hit hit_rank="1" peptide="ANTNNYAPKSSR" peptide_prev_aa="A" peptide_next_aa="N" protein="sp|Q04787|BSH_DROME" protein_descr="Brain-specific homeobox protein OS=Drosophila melanogaster GN=bsh PE=2 SV=5" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="44" calc_neutral_pep_mass="1303.6267" massdiff="-54.962" num_tol_term="1" num_missed_cleavages="1" is_rejected="0">
136 <search_score name="hyperscore" value="20.6"/>
137 <search_score name="nextscore" value="20.6"/>
138 <search_score name="bscore" value="9.2"/>
139 <search_score name="yscore" value="10.3"/>
140 <search_score name="cscore" value="0"/>
141 <search_score name="zscore" value="0"/>
142 <search_score name="ascore" value="0"/>
143 <search_score name="xscore" value="0"/>
144 <search_score name="expect" value="2.8"/>
145 </search_hit>
146 </search_result>
147 </spectrum_query>
148 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00003.00003.2" start_scan="3" end_scan="3" precursor_neutral_mass="1398.7025" assumed_charge="2" index="3">
149 <search_result>
150 <search_hit hit_rank="1" peptide="NRAVFSLMQRR" peptide_prev_aa="W" peptide_next_aa="G" protein="sp|P28468|HOX1_HALRO" protein_descr="Homeobox protein AHox1 OS=Halocynthia roretzi GN=AHOX1 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="20" calc_neutral_pep_mass="1374.7307" massdiff="23.972" num_tol_term="1" num_missed_cleavages="1" is_rejected="0">
151 <modification_info>
152 <mod_aminoacid_mass position="8" mass="147.0354" />
153 </modification_info>
154 <search_score name="hyperscore" value="19.6"/>
155 <search_score name="nextscore" value="19.1"/>
156 <search_score name="bscore" value="2.7"/>
157 <search_score name="yscore" value="10"/>
158 <search_score name="cscore" value="0"/>
159 <search_score name="zscore" value="0"/>
160 <search_score name="ascore" value="0"/>
161 <search_score name="xscore" value="0"/>
162 <search_score name="expect" value="0.32"/>
163 </search_hit>
164 </search_result>
165 </spectrum_query>
166 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00004.00004.2" start_scan="4" end_scan="4" precursor_neutral_mass="921.5162" assumed_charge="2" index="4">
167 <search_result>
168 <search_hit hit_rank="1" peptide="YLASAERA" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|O93367|TLX3_CHICK" protein_descr="T-cell leukemia homeobox protein 3 OS=Gallus gallus GN=TLX3 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="861.4347" massdiff="60.081" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
169 <search_score name="hyperscore" value="19.5"/>
170 <search_score name="nextscore" value="18.5"/>
171 <search_score name="bscore" value="5.9"/>
172 <search_score name="yscore" value="9.8"/>
173 <search_score name="cscore" value="0"/>
174 <search_score name="zscore" value="0"/>
175 <search_score name="ascore" value="0"/>
176 <search_score name="xscore" value="0"/>
177 <search_score name="expect" value="1.8"/>
178 </search_hit>
179 </search_result>
180 </spectrum_query>
181 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00005.00005.2" start_scan="5" end_scan="5" precursor_neutral_mass="1501.6666" assumed_charge="2" index="5">
182 <search_result>
183 <search_hit hit_rank="1" peptide="FKTTRYLSVCER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P22807|SLOU_DROME" protein_descr="Homeobox protein slou OS=Drosophila melanogaster GN=slou PE=2 SV=1" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1483.7607" massdiff="17.906" num_tol_term="2" num_missed_cleavages="2" is_rejected="0">
184 <search_score name="hyperscore" value="22.1"/>
185 <search_score name="nextscore" value="19.8"/>
186 <search_score name="bscore" value="10.5"/>
187 <search_score name="yscore" value="8.5"/>
188 <search_score name="cscore" value="0"/>
189 <search_score name="zscore" value="0"/>
190 <search_score name="ascore" value="0"/>
191 <search_score name="xscore" value="0"/>
192 <search_score name="expect" value="1.3"/>
193 </search_hit>
194 </search_result>
195 </spectrum_query>
196 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00006.00006.3" start_scan="6" end_scan="6" precursor_neutral_mass="1748.7227" assumed_charge="3" index="6">
197 <search_result>
198 <search_hit hit_rank="1" peptide="RQTAVGLELLAEAGNYSA" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|O88181|BARH2_RAT" protein_descr="BarH-like 2 homeobox protein OS=Rattus norvegicus GN=Barhl2 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="68" calc_neutral_pep_mass="1843.9427" massdiff="-95.220" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
199 <search_score name="hyperscore" value="21.5"/>
200 <search_score name="nextscore" value="21.1"/>
201 <search_score name="bscore" value="8.5"/>
202 <search_score name="yscore" value="9.8"/>
203 <search_score name="cscore" value="0"/>
204 <search_score name="zscore" value="0"/>
205 <search_score name="ascore" value="0"/>
206 <search_score name="xscore" value="0"/>
207 <search_score name="expect" value="2.5"/>
208 </search_hit>
209 </search_result>
210 </spectrum_query>
211 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00007.00007.2" start_scan="7" end_scan="7" precursor_neutral_mass="1160.4761" assumed_charge="2" index="7">
212 <search_result>
213 <search_hit hit_rank="1" peptide="EEPETEVRM" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|Q01702|DLX3B_DANRE" protein_descr="Homeobox protein Dlx3b OS=Danio rerio GN=dlx3b PE=2 SV=1" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="1100.4807" massdiff="59.995" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
214 <search_score name="hyperscore" value="23.1"/>
215 <search_score name="nextscore" value="23.1"/>
216 <search_score name="bscore" value="0"/>
217 <search_score name="yscore" value="11.7"/>
218 <search_score name="cscore" value="0"/>
219 <search_score name="zscore" value="0"/>
220 <search_score name="ascore" value="0"/>
221 <search_score name="xscore" value="0"/>
222 <search_score name="expect" value="0.068"/>
223 </search_hit>
224 </search_result>
225 </spectrum_query>
226 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00008.00008.2" start_scan="8" end_scan="8" precursor_neutral_mass="1106.5508" assumed_charge="2" index="8">
227 <search_result>
228 <search_hit hit_rank="1" peptide="RQATSGMDLLS" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|Q22909|HM30_CAEEL" protein_descr="Homeobox protein ceh-30 OS=Caenorhabditis elegans GN=ceh-30 PE=2 SV=2" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="20" calc_neutral_pep_mass="1175.5607" massdiff="-69.010" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
229 <modification_info>
230 <mod_aminoacid_mass position="7" mass="147.0354" />
231 </modification_info>
232 <search_score name="hyperscore" value="19.2"/>
233 <search_score name="nextscore" value="17.3"/>
234 <search_score name="bscore" value="8.8"/>
235 <search_score name="yscore" value="8"/>
236 <search_score name="cscore" value="0"/>
237 <search_score name="zscore" value="0"/>
238 <search_score name="ascore" value="0"/>
239 <search_score name="xscore" value="0"/>
240 <search_score name="expect" value="1.2"/>
241 </search_hit>
242 </search_result>
243 </spectrum_query>
244 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00009.00009.2" start_scan="9" end_scan="9" precursor_neutral_mass="1746.7706" assumed_charge="2" index="9">
245 <search_result>
246 <search_hit hit_rank="1" peptide="EQLAQLMPPTSQLPGM" peptide_prev_aa="R" peptide_next_aa="P" protein="sp|P34663|HM23_CAEEL" protein_descr="Homeobox protein ceh-23 OS=Caenorhabditis elegans GN=ceh-23 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="30" calc_neutral_pep_mass="1753.8377" massdiff="-7.067" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
247 <modification_info>
248 <mod_aminoacid_mass position="7" mass="147.0354" />
249 <mod_aminoacid_mass position="16" mass="147.0354" />
250 </modification_info>
251 <search_score name="hyperscore" value="20.5"/>
252 <search_score name="nextscore" value="20.5"/>
253 <search_score name="bscore" value="0"/>
254 <search_score name="yscore" value="9.1"/>
255 <search_score name="cscore" value="0"/>
256 <search_score name="zscore" value="0"/>
257 <search_score name="ascore" value="0"/>
258 <search_score name="xscore" value="0"/>
259 <search_score name="expect" value="1.8"/>
260 </search_hit>
261 </search_result>
262 </spectrum_query>
263 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00010.00010.3" start_scan="10" end_scan="10" precursor_neutral_mass="1746.7642" assumed_charge="3" index="10">
264 <search_result>
265 <search_hit hit_rank="1" peptide="SGMNMGGMGGLSSLGDVSK" peptide_prev_aa="S" peptide_next_aa="S" protein="tr|Q9YH59|Q9YH59_CHICK" protein_descr="Homeodomain protein NKx2.1 OS=Gallus gallus GN=NKx2.1 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="72" calc_neutral_pep_mass="1813.7647" massdiff="-67.001" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
266 <modification_info>
267 <mod_aminoacid_mass position="3" mass="147.0354" />
268 <mod_aminoacid_mass position="5" mass="147.0354" />
269 <mod_aminoacid_mass position="8" mass="147.0354" />
270 </modification_info>
271 <search_score name="hyperscore" value="22.7"/>
272 <search_score name="nextscore" value="21.6"/>
273 <search_score name="bscore" value="11.1"/>
274 <search_score name="yscore" value="6.9"/>
275 <search_score name="cscore" value="0"/>
276 <search_score name="zscore" value="0"/>
277 <search_score name="ascore" value="0"/>
278 <search_score name="xscore" value="0"/>
279 <search_score name="expect" value="2.5"/>
280 </search_hit>
281 </search_result>
282 </spectrum_query>
283 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00011.00011.2" start_scan="11" end_scan="11" precursor_neutral_mass="1261.6340" assumed_charge="2" index="11">
284 <search_result>
285 <search_hit hit_rank="1" peptide="FLVDDILRRK" peptide_prev_aa="S" peptide_next_aa="H" protein="tr|O16132|O16132_HYDVU" protein_descr="NK-2 class homeobox transcription factor OS=Hydra vulgaris GN=CnNK-2 PE=2 SV=1" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="18" calc_neutral_pep_mass="1255.7397" massdiff="5.894" num_tol_term="1" num_missed_cleavages="1" is_rejected="0">
286 <search_score name="hyperscore" value="17.7"/>
287 <search_score name="nextscore" value="17.0"/>
288 <search_score name="bscore" value="11"/>
289 <search_score name="yscore" value="3.3"/>
290 <search_score name="cscore" value="0"/>
291 <search_score name="zscore" value="0"/>
292 <search_score name="ascore" value="0"/>
293 <search_score name="xscore" value="0"/>
294 <search_score name="expect" value="2.2"/>
295 </search_hit>
296 </search_result>
297 </spectrum_query>
298 <spectrum_query spectrum="mr176-BSA100fmole_BA3_01_8168.d.mgf.00012.00012.2" start_scan="12" end_scan="12" precursor_neutral_mass="1746.7675" assumed_charge="2" index="12">
299 <search_result>
300 <search_hit hit_rank="1" peptide="KQNPGMDVNSPTIPPP" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P22807|SLOU_DROME" protein_descr="Homeobox protein slou OS=Drosophila melanogaster GN=slou PE=2 SV=1" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="30" calc_neutral_pep_mass="1672.8247" massdiff="73.943" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
301 <search_score name="hyperscore" value="17.1"/>
302 <search_score name="nextscore" value="16.3"/>
303 <search_score name="bscore" value="6.4"/>
304 <search_score name="yscore" value="8.3"/>
305 <search_score name="cscore" value="0"/>
306 <search_score name="zscore" value="0"/>
307 <search_score name="ascore" value="0"/>
308 <search_score name="xscore" value="0"/>
309 <search_score name="expect" value="2.3"/>
310 </search_hit>
311 </search_result>
312 </spectrum_query>
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1583 <search_hit hit_rank="1" peptide="LNPGSV" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|Q04787|BSH_DROME" protein_descr="Brain-specific homeobox protein OS=Drosophila melanogaster GN=bsh PE=2 SV=5" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="10" calc_neutral_pep_mass="567.3017" massdiff="-65.966" num_tol_term="1" num_missed_cleavages="0" is_rejected="0">
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