mspire 0.4.9 → 0.5.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (255) hide show
  1. data/README +27 -17
  2. data/changelog.txt +31 -62
  3. data/lib/ms/calc.rb +32 -0
  4. data/lib/ms/data/interleaved.rb +60 -0
  5. data/lib/ms/data/lazy_io.rb +73 -0
  6. data/lib/ms/data/lazy_string.rb +15 -0
  7. data/lib/ms/data/simple.rb +59 -0
  8. data/lib/ms/data/transposed.rb +41 -0
  9. data/lib/ms/data.rb +57 -0
  10. data/lib/ms/format/format_error.rb +12 -0
  11. data/lib/ms/spectrum.rb +25 -384
  12. data/lib/ms/support/binary_search.rb +126 -0
  13. data/lib/ms.rb +10 -10
  14. metadata +38 -350
  15. data/INSTALL +0 -58
  16. data/README.rdoc +0 -18
  17. data/Rakefile +0 -330
  18. data/bin/aafreqs.rb +0 -23
  19. data/bin/bioworks2excel.rb +0 -14
  20. data/bin/bioworks_to_pepxml.rb +0 -148
  21. data/bin/bioworks_to_pepxml_gui.rb +0 -225
  22. data/bin/fasta_shaker.rb +0 -5
  23. data/bin/filter_and_validate.rb +0 -5
  24. data/bin/gi2annot.rb +0 -14
  25. data/bin/id_class_anal.rb +0 -112
  26. data/bin/id_precision.rb +0 -172
  27. data/bin/ms_to_lmat.rb +0 -67
  28. data/bin/pepproph_filter.rb +0 -16
  29. data/bin/prob_validate.rb +0 -6
  30. data/bin/protein_summary.rb +0 -6
  31. data/bin/protxml2prots_peps.rb +0 -32
  32. data/bin/raw_to_mzXML.rb +0 -55
  33. data/bin/run_percolator.rb +0 -122
  34. data/bin/sqt_group.rb +0 -26
  35. data/bin/srf_group.rb +0 -27
  36. data/bin/srf_to_sqt.rb +0 -40
  37. data/lib/align/chams.rb +0 -78
  38. data/lib/align.rb +0 -154
  39. data/lib/archive/targz.rb +0 -94
  40. data/lib/bsearch.rb +0 -120
  41. data/lib/core_extensions.rb +0 -16
  42. data/lib/fasta.rb +0 -626
  43. data/lib/gi.rb +0 -124
  44. data/lib/group_by.rb +0 -10
  45. data/lib/index_by.rb +0 -11
  46. data/lib/merge_deep.rb +0 -21
  47. data/lib/ms/converter/mzxml.rb +0 -77
  48. data/lib/ms/gradient_program.rb +0 -170
  49. data/lib/ms/msrun.rb +0 -244
  50. data/lib/ms/msrun_index.rb +0 -108
  51. data/lib/ms/parser/mzdata/axml.rb +0 -67
  52. data/lib/ms/parser/mzdata/dom.rb +0 -175
  53. data/lib/ms/parser/mzdata/libxml.rb +0 -7
  54. data/lib/ms/parser/mzdata.rb +0 -31
  55. data/lib/ms/parser/mzxml/axml.rb +0 -70
  56. data/lib/ms/parser/mzxml/dom.rb +0 -182
  57. data/lib/ms/parser/mzxml/hpricot.rb +0 -253
  58. data/lib/ms/parser/mzxml/libxml.rb +0 -19
  59. data/lib/ms/parser/mzxml/regexp.rb +0 -122
  60. data/lib/ms/parser/mzxml/rexml.rb +0 -72
  61. data/lib/ms/parser/mzxml/xmlparser.rb +0 -248
  62. data/lib/ms/parser/mzxml.rb +0 -282
  63. data/lib/ms/parser.rb +0 -108
  64. data/lib/ms/precursor.rb +0 -25
  65. data/lib/ms/scan.rb +0 -81
  66. data/lib/mspire.rb +0 -4
  67. data/lib/pi_zero.rb +0 -244
  68. data/lib/qvalue.rb +0 -161
  69. data/lib/roc.rb +0 -187
  70. data/lib/sample_enzyme.rb +0 -160
  71. data/lib/scan_i.rb +0 -21
  72. data/lib/spec_id/aa_freqs.rb +0 -170
  73. data/lib/spec_id/bioworks.rb +0 -497
  74. data/lib/spec_id/digestor.rb +0 -138
  75. data/lib/spec_id/mass.rb +0 -179
  76. data/lib/spec_id/parser/proph.rb +0 -335
  77. data/lib/spec_id/precision/filter/cmdline.rb +0 -218
  78. data/lib/spec_id/precision/filter/interactive.rb +0 -134
  79. data/lib/spec_id/precision/filter/output.rb +0 -148
  80. data/lib/spec_id/precision/filter.rb +0 -637
  81. data/lib/spec_id/precision/output.rb +0 -60
  82. data/lib/spec_id/precision/prob/cmdline.rb +0 -160
  83. data/lib/spec_id/precision/prob/output.rb +0 -94
  84. data/lib/spec_id/precision/prob.rb +0 -249
  85. data/lib/spec_id/proph/pep_summary.rb +0 -104
  86. data/lib/spec_id/proph/prot_summary.rb +0 -484
  87. data/lib/spec_id/proph.rb +0 -4
  88. data/lib/spec_id/protein_summary.rb +0 -489
  89. data/lib/spec_id/sequest/params.rb +0 -316
  90. data/lib/spec_id/sequest/pepxml.rb +0 -1458
  91. data/lib/spec_id/sequest.rb +0 -33
  92. data/lib/spec_id/sqt.rb +0 -349
  93. data/lib/spec_id/srf.rb +0 -973
  94. data/lib/spec_id.rb +0 -778
  95. data/lib/spec_id_xml.rb +0 -99
  96. data/lib/transmem/phobius.rb +0 -147
  97. data/lib/transmem/toppred.rb +0 -368
  98. data/lib/transmem.rb +0 -157
  99. data/lib/validator/aa.rb +0 -48
  100. data/lib/validator/aa_est.rb +0 -112
  101. data/lib/validator/background.rb +0 -77
  102. data/lib/validator/bias.rb +0 -95
  103. data/lib/validator/cmdline.rb +0 -431
  104. data/lib/validator/decoy.rb +0 -107
  105. data/lib/validator/digestion_based.rb +0 -70
  106. data/lib/validator/probability.rb +0 -51
  107. data/lib/validator/prot_from_pep.rb +0 -234
  108. data/lib/validator/q_value.rb +0 -32
  109. data/lib/validator/transmem.rb +0 -272
  110. data/lib/validator/true_pos.rb +0 -46
  111. data/lib/validator.rb +0 -197
  112. data/lib/xml.rb +0 -38
  113. data/lib/xml_style_parser.rb +0 -119
  114. data/lib/xmlparser_wrapper.rb +0 -19
  115. data/release_notes.txt +0 -2
  116. data/script/compile_and_plot_smriti_final.rb +0 -97
  117. data/script/create_little_pepxml.rb +0 -61
  118. data/script/degenerate_peptides.rb +0 -47
  119. data/script/estimate_fpr_by_cysteine.rb +0 -226
  120. data/script/extract_gradient_programs.rb +0 -56
  121. data/script/find_cysteine_background.rb +0 -137
  122. data/script/genuine_tps_and_probs.rb +0 -136
  123. data/script/get_apex_values_rexml.rb +0 -44
  124. data/script/histogram_probs.rb +0 -61
  125. data/script/mascot_fix_pepxml.rb +0 -123
  126. data/script/msvis.rb +0 -42
  127. data/script/mzXML2timeIndex.rb +0 -25
  128. data/script/peps_per_bin.rb +0 -67
  129. data/script/prep_dir.rb +0 -121
  130. data/script/simple_protein_digestion.rb +0 -27
  131. data/script/smriti_final_analysis.rb +0 -103
  132. data/script/sqt_to_meta.rb +0 -24
  133. data/script/top_hit_per_scan.rb +0 -67
  134. data/script/toppred_to_yaml.rb +0 -47
  135. data/script/tpp_installer.rb +0 -249
  136. data/specs/align_spec.rb +0 -79
  137. data/specs/bin/bioworks_to_pepxml_spec.rb +0 -79
  138. data/specs/bin/fasta_shaker_spec.rb +0 -259
  139. data/specs/bin/filter_and_validate__multiple_vals_helper.yaml +0 -199
  140. data/specs/bin/filter_and_validate_spec.rb +0 -180
  141. data/specs/bin/ms_to_lmat_spec.rb +0 -34
  142. data/specs/bin/prob_validate_spec.rb +0 -86
  143. data/specs/bin/protein_summary_spec.rb +0 -14
  144. data/specs/fasta_spec.rb +0 -354
  145. data/specs/gi_spec.rb +0 -22
  146. data/specs/load_bin_path.rb +0 -7
  147. data/specs/merge_deep_spec.rb +0 -13
  148. data/specs/ms/gradient_program_spec.rb +0 -77
  149. data/specs/ms/msrun_spec.rb +0 -498
  150. data/specs/ms/parser_spec.rb +0 -92
  151. data/specs/ms/spectrum_spec.rb +0 -87
  152. data/specs/pi_zero_spec.rb +0 -115
  153. data/specs/qvalue_spec.rb +0 -39
  154. data/specs/roc_spec.rb +0 -251
  155. data/specs/rspec_autotest.rb +0 -149
  156. data/specs/sample_enzyme_spec.rb +0 -126
  157. data/specs/spec_helper.rb +0 -135
  158. data/specs/spec_id/aa_freqs_spec.rb +0 -52
  159. data/specs/spec_id/bioworks_spec.rb +0 -148
  160. data/specs/spec_id/digestor_spec.rb +0 -75
  161. data/specs/spec_id/precision/filter/cmdline_spec.rb +0 -20
  162. data/specs/spec_id/precision/filter/output_spec.rb +0 -31
  163. data/specs/spec_id/precision/filter_spec.rb +0 -246
  164. data/specs/spec_id/precision/prob_spec.rb +0 -44
  165. data/specs/spec_id/precision/prob_spec_helper.rb +0 -0
  166. data/specs/spec_id/proph/pep_summary_spec.rb +0 -98
  167. data/specs/spec_id/proph/prot_summary_spec.rb +0 -128
  168. data/specs/spec_id/protein_summary_spec.rb +0 -189
  169. data/specs/spec_id/sequest/params_spec.rb +0 -68
  170. data/specs/spec_id/sequest/pepxml_spec.rb +0 -374
  171. data/specs/spec_id/sequest_spec.rb +0 -38
  172. data/specs/spec_id/sqt_spec.rb +0 -246
  173. data/specs/spec_id/srf_spec.rb +0 -172
  174. data/specs/spec_id/srf_spec_helper.rb +0 -139
  175. data/specs/spec_id_helper.rb +0 -33
  176. data/specs/spec_id_spec.rb +0 -366
  177. data/specs/spec_id_xml_spec.rb +0 -33
  178. data/specs/transmem/phobius_spec.rb +0 -425
  179. data/specs/transmem/toppred_spec.rb +0 -298
  180. data/specs/transmem_spec.rb +0 -60
  181. data/specs/transmem_spec_shared.rb +0 -64
  182. data/specs/validator/aa_est_spec.rb +0 -66
  183. data/specs/validator/aa_spec.rb +0 -40
  184. data/specs/validator/background_spec.rb +0 -67
  185. data/specs/validator/bias_spec.rb +0 -122
  186. data/specs/validator/decoy_spec.rb +0 -51
  187. data/specs/validator/fasta_helper.rb +0 -26
  188. data/specs/validator/prot_from_pep_spec.rb +0 -141
  189. data/specs/validator/transmem_spec.rb +0 -146
  190. data/specs/validator/true_pos_spec.rb +0 -58
  191. data/specs/validator_helper.rb +0 -33
  192. data/specs/xml_spec.rb +0 -12
  193. data/test_files/000_pepxml18_small.xml +0 -206
  194. data/test_files/020a.mzXML.timeIndex +0 -4710
  195. data/test_files/4-03-03_mzXML/000.mzXML.timeIndex +0 -3973
  196. data/test_files/4-03-03_mzXML/020.mzXML.timeIndex +0 -3872
  197. data/test_files/4-03-03_small-prot.xml +0 -321
  198. data/test_files/4-03-03_small.xml +0 -3876
  199. data/test_files/7MIX_STD_110802_1.sequest_params_fragment.srf +0 -0
  200. data/test_files/bioworks-3.3_10prots.xml +0 -5999
  201. data/test_files/bioworks31.params +0 -77
  202. data/test_files/bioworks32.params +0 -62
  203. data/test_files/bioworks33.params +0 -63
  204. data/test_files/bioworks_single_run_small.xml +0 -7237
  205. data/test_files/bioworks_small.fasta +0 -212
  206. data/test_files/bioworks_small.params +0 -63
  207. data/test_files/bioworks_small.phobius +0 -109
  208. data/test_files/bioworks_small.toppred.out +0 -2847
  209. data/test_files/bioworks_small.xml +0 -5610
  210. data/test_files/bioworks_with_INV_small.xml +0 -3753
  211. data/test_files/bioworks_with_SHUFF_small.xml +0 -2503
  212. data/test_files/corrupted_900.srf +0 -0
  213. data/test_files/head_of_7MIX.srf +0 -0
  214. data/test_files/interact-opd1_mods_small-prot.xml +0 -304
  215. data/test_files/messups.fasta +0 -297
  216. data/test_files/opd1/000.my_answer.100lines.xml +0 -101
  217. data/test_files/opd1/000.tpp_1.2.3.first10.xml +0 -115
  218. data/test_files/opd1/000.tpp_2.9.2.first10.xml +0 -126
  219. data/test_files/opd1/000.v2.1.mzXML.timeIndex +0 -3748
  220. data/test_files/opd1/000_020-prot.png +0 -0
  221. data/test_files/opd1/000_020_3prots-prot.mod_initprob.xml +0 -62
  222. data/test_files/opd1/000_020_3prots-prot.xml +0 -62
  223. data/test_files/opd1/opd1_cat_inv_small-prot.xml +0 -139
  224. data/test_files/opd1/sequest.3.1.params +0 -77
  225. data/test_files/opd1/sequest.3.2.params +0 -62
  226. data/test_files/opd1/twenty_scans.mzXML +0 -418
  227. data/test_files/opd1/twenty_scans.v2.1.mzXML +0 -382
  228. data/test_files/opd1/twenty_scans_answ.lmat +0 -0
  229. data/test_files/opd1/twenty_scans_answ.lmata +0 -9
  230. data/test_files/opd1_020_beginning.RAW +0 -0
  231. data/test_files/opd1_2runs_2mods/data/020.mzData.xml +0 -683
  232. data/test_files/opd1_2runs_2mods/data/020.readw.mzXML +0 -382
  233. data/test_files/opd1_2runs_2mods/data/040.mzData.xml +0 -683
  234. data/test_files/opd1_2runs_2mods/data/040.readw.mzXML +0 -382
  235. data/test_files/opd1_2runs_2mods/data/README.txt +0 -6
  236. data/test_files/opd1_2runs_2mods/interact-opd1_mods__small.xml +0 -753
  237. data/test_files/orbitrap_mzData/000_cut.xml +0 -1920
  238. data/test_files/pepproph_small.xml +0 -4691
  239. data/test_files/phobius.small.noheader.txt +0 -50
  240. data/test_files/phobius.small.small.txt +0 -53
  241. data/test_files/s01_anC1_ld020mM.key.txt +0 -25
  242. data/test_files/s01_anC1_ld020mM.meth +0 -0
  243. data/test_files/small.fasta +0 -297
  244. data/test_files/small.sqt +0 -87
  245. data/test_files/smallraw.RAW +0 -0
  246. data/test_files/tf_bioworks2excel.bioXML +0 -14340
  247. data/test_files/tf_bioworks2excel.txt.actual +0 -1035
  248. data/test_files/toppred.small.out +0 -416
  249. data/test_files/toppred.xml.out +0 -318
  250. data/test_files/validator_hits_separate/bias_bioworks_small_HS.fasta +0 -7
  251. data/test_files/validator_hits_separate/bioworks_small_HS.xml +0 -5651
  252. data/test_files/yeast_gly_small-prot.xml +0 -265
  253. data/test_files/yeast_gly_small.1.0_1.0_1.0.parentTimes +0 -6
  254. data/test_files/yeast_gly_small.xml +0 -3807
  255. data/test_files/yeast_gly_small2.parentTimes +0 -6
data/test_files/bioworks_with_INV_small.xml DELETED
@@ -1,3753 +0,0 @@
1
- <?xml version="1.0"?>
2
- <sequestresults xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="schema1.xsd">
3
- <bioworksinfo>3.2 EF1</bioworksinfo>
4
- <protein>
5
- <reference>gi|7427923|pir||PHRBG glycogen phosphorylase (EC 2.4.1.1), muscle - rabbit</reference>
6
- <protein_probability>5.76E-10</protein_probability>
7
- <consensus_score>250.3</consensus_score>
8
- <Sf>0.00</Sf>
9
- <unified_score>0</unified_score>
10
- <coverage>0.0</coverage>
11
- <pI>0.0</pI>
12
- <weight>97288.8</weight>
13
- <accession>7427923</accession>
14
- <peptide>
15
- <file>7MIX_STD_110802_1, 137</file>
16
- <sequence>R.NLAENISR.V</sequence>
17
- <mass>917.00</mass>
18
- <deltamass>0.31</deltamass>
19
- <charge>2</charge>
20
- <peptide_probability>5.76E-10</peptide_probability>
21
- <xcorr>2.453</xcorr>
22
- <deltacn>0.124</deltacn>
23
- <sp>623.3</sp>
24
- <rsp>2</rsp>
25
- <ions>12/14</ions>
26
- <count>0</count>
27
- <tic>4041</tic>
28
- </peptide>
29
- <peptide>
30
- <file>7MIX_STD_110802_1, 140</file>
31
- <sequence>R.NLAENISR.V</sequence>
32
- <mass>917.00</mass>
33
- <deltamass>0.13</deltamass>
34
- <charge>2</charge>
35
- <peptide_probability>5.76E-10</peptide_probability>
36
- <xcorr>2.420</xcorr>
37
- <deltacn>0.255</deltacn>
38
- <sp>628.7</sp>
39
- <rsp>2</rsp>
40
- <ions>12/14</ions>
41
- <count>0</count>
42
- <tic>4377</tic>
43
- </peptide>
44
- <peptide>
45
- <file>7MIX_STD_110802_1, 143</file>
46
- <sequence>R.IPELR.Q</sequence>
47
- <mass>627.76</mass>
48
- <deltamass>0.50</deltamass>
49
- <charge>1</charge>
50
- <peptide_probability>5.76E-10</peptide_probability>
51
- <xcorr>1.722</xcorr>
52
- <deltacn>0.000</deltacn>
53
- <sp>306.9</sp>
54
- <rsp>1</rsp>
55
- <ions>7/8</ions>
56
- <count>2</count>
57
- <tic>3810</tic>
58
- </peptide>
59
- <peptide>
60
- <file>7MIX_STD_110802_1, 155</file>
61
- <sequence>R.IPELR.Q</sequence>
62
- <mass>627.76</mass>
63
- <deltamass>0.47</deltamass>
64
- <charge>1</charge>
65
- <peptide_probability>5.76E-10</peptide_probability>
66
- <xcorr>1.803</xcorr>
67
- <deltacn>0.000</deltacn>
68
- <sp>270.9</sp>
69
- <rsp>1</rsp>
70
- <ions>7/8</ions>
71
- <count>2</count>
72
- <tic>3308</tic>
73
- </peptide>
74
- <peptide>
75
- <file>7MIX_STD_110802_1, 167</file>
76
- <sequence>R.NLAENISR.V</sequence>
77
- <mass>917.00</mass>
78
- <deltamass>0.45</deltamass>
79
- <charge>1</charge>
80
- <peptide_probability>5.76E-10</peptide_probability>
81
- <xcorr>1.485</xcorr>
82
- <deltacn>0.124</deltacn>
83
- <sp>144.1</sp>
84
- <rsp>1</rsp>
85
- <ions>10/14</ions>
86
- <count>0</count>
87
- <tic>2592</tic>
88
- </peptide>
89
- <peptide>
90
- <file>7MIX_STD_110802_1, 257</file>
91
- <sequence>R.NLAENISR.V</sequence>
92
- <mass>917.00</mass>
93
- <deltamass>0.21</deltamass>
94
- <charge>2</charge>
95
- <peptide_probability>5.76E-10</peptide_probability>
96
- <xcorr>2.122</xcorr>
97
- <deltacn>0.250</deltacn>
98
- <sp>446.5</sp>
99
- <rsp>1</rsp>
100
- <ions>11/14</ions>
101
- <count>0</count>
102
- <tic>3503</tic>
103
- </peptide>
104
- <peptide>
105
- <file>7MIX_STD_110802_1, 260</file>
106
- <sequence>R.NLAENISR.V</sequence>
107
- <mass>917.00</mass>
108
- <deltamass>0.02</deltamass>
109
- <charge>2</charge>
110
- <peptide_probability>5.76E-10</peptide_probability>
111
- <xcorr>2.457</xcorr>
112
- <deltacn>0.286</deltacn>
113
- <sp>584.1</sp>
114
- <rsp>1</rsp>
115
- <ions>12/14</ions>
116
- <count>0</count>
117
- <tic>3830</tic>
118
- </peptide>
119
- <peptide>
120
- <file>7MIX_STD_110802_1, 281</file>
121
- <sequence>R.NLAENISR.V</sequence>
122
- <mass>917.00</mass>
123
- <deltamass>0.48</deltamass>
124
- <charge>1</charge>
125
- <peptide_probability>5.76E-10</peptide_probability>
126
- <xcorr>2.312</xcorr>
127
- <deltacn>0.164</deltacn>
128
- <sp>211.1</sp>
129
- <rsp>1</rsp>
130
- <ions>11/14</ions>
131
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132
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133
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134
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135
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137
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138
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142
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143
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144
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145
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146
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147
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148
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149
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150
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154
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155
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156
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157
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158
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159
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160
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161
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162
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163
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164
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165
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166
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167
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168
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169
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170
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171
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172
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173
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174
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175
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176
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177
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178
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179
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180
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181
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182
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183
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184
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185
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186
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187
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188
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189
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190
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191
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192
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193
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194
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195
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199
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201
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202
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203
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204
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205
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206
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207
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208
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209
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210
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211
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212
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213
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214
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215
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216
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217
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218
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219
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220
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221
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222
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223
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224
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225
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226
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227
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228
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229
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230
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231
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232
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233
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234
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235
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236
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237
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238
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239
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240
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241
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244
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245
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246
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247
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248
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249
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250
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251
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252
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253
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254
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255
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256
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257
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260
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261
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262
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263
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264
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265
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266
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267
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268
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269
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270
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271
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272
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274
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275
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276
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277
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278
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279
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280
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281
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282
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283
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284
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285
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286
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287
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288
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289
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290
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291
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292
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293
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294
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295
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296
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297
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298
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299
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300
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301
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302
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304
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305
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306
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307
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308
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309
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310
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311
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312
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313
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314
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315
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316
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317
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319
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320
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321
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322
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323
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324
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325
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326
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327
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328
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329
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330
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331
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332
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334
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335
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336
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337
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338
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339
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340
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341
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342
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343
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344
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345
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346
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347
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349
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350
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351
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352
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353
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354
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355
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356
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357
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358
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359
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360
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361
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362
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364
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366
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367
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368
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369
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370
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371
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373
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374
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375
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376
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377
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378
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379
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380
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381
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382
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383
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384
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385
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386
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388
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389
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390
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391
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392
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394
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395
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396
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397
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398
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399
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400
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401
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402
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403
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404
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405
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406
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407
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409
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410
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411
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412
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413
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414
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415
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416
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417
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418
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419
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420
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421
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422
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424
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425
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426
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427
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428
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429
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430
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431
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432
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433
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434
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435
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436
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439
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440
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441
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442
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443
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444
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445
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446
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449
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450
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451
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452
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454
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455
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456
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457
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458
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460
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461
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462
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464
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465
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466
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467
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468
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469
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470
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471
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472
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473
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474
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475
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476
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477
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479
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480
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481
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482
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485
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486
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487
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490
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494
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495
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505
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506
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510
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515
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517
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520
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521
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522
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525
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526
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530
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531
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532
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535
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536
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540
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550
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565
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566
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568
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569
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570
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575
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579
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580
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581
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582
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583
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610
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615
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620
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622
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625
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656
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660
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670
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675
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731
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1104
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1108
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1120
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1121
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1124
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1135
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1138
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1139
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1140
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1143
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1164
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1175
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1178
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1179
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1180
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1191
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1192
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1221
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1224
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1239
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1265
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1267
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1270
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1454
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1563
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1568
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1569
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1570
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1571
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1572
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1573
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1574
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1575
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1576
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1577
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1578
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1579
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1580
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1581
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1582
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1583
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1584
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1585
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1586
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1587
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1588
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1589
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1590
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1591
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1592
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1593
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1594
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1595
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1596
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1597
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1598
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1599
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1600
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1601
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1602
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1603
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1604
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1605
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1606
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1607
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1608
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1609
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1610
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1611
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1612
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1613
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1614
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1615
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1616
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1617
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1618
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1619
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1620
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1621
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1622
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1623
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1624
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1625
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1626
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1627
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1628
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1629
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1630
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1631
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1632
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1633
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1634
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1635
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1636
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1637
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1638
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1639
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1640
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1641
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1642
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1643
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1644
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1645
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1646
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1647
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1648
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1649
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1650
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1651
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1652
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1653
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1654
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1655
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1656
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1657
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1658
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1659
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1660
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1661
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1662
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1663
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1664
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1665
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1666
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1667
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1668
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1669
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1670
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1671
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1672
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1673
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1674
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1675
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1676
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1677
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1678
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1679
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1680
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1681
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1682
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1683
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1684
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1685
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1686
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1687
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1688
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1689
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1690
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1691
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1692
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1693
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1694
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1695
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1696
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1697
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1698
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1699
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1700
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1701
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1702
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1703
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1704
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1705
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1706
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1707
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1708
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1709
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1710
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1711
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1712
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1713
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1714
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1715
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1716
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1717
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1718
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1719
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1720
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1721
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1722
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1723
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1724
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1725
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1726
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1727
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1728
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1729
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1730
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1731
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1732
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1733
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1734
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1735
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1736
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1737
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1738
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1739
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1740
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1741
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1742
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1743
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1744
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1745
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1746
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1747
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1748
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1749
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1750
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1751
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1752
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1753
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1754
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1755
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1756
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1757
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1758
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1759
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1760
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1761
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1762
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1763
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1764
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1765
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1766
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1767
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1768
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1769
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1770
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1771
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1772
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1773
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1774
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1775
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1776
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1777
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1778
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1779
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1780
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1781
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1782
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1783
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1784
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1785
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1786
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1787
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1788
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1789
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1790
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1791
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1792
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1793
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1794
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1795
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1796
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1797
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1798
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1799
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1800
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1801
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1802
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1803
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1804
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1805
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1806
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1807
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1808
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1809
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1810
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1811
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1812
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1813
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1814
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1815
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1816
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1817
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1818
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1819
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1820
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1821
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1822
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1823
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1824
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1825
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1826
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1827
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1828
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1829
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1830
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1831
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1832
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1833
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1834
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1835
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1836
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1837
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1838
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1839
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1840
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1841
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1842
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1843
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1844
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1845
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1846
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1847
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1848
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1849
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1850
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1851
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1852
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1853
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1854
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1855
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1856
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1857
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1858
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1859
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1860
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1861
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1862
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1863
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1864
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1865
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1866
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1867
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1868
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1869
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1870
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1871
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1872
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1873
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1874
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1875
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1876
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1877
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1878
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1879
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1880
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1881
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1882
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1883
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1884
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1885
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1886
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1887
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1888
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1889
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1890
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1891
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1892
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1893
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1894
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1895
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1896
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1897
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1898
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1899
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1900
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1901
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1902
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1903
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1904
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1905
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1906
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1907
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1908
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1909
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1910
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1911
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1912
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1913
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1914
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1915
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1916
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1917
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1918
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1919
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1920
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1921
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1922
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1923
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1924
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1925
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1926
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1927
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1928
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1929
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1930
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1931
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1932
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1933
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1934
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1935
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1936
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1937
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1938
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1939
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1940
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1941
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1942
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1943
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1944
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1945
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1946
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1947
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1948
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1949
- <count>1</count>
1950
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1951
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1952
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1953
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1954
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1955
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1956
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1957
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1958
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1959
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1960
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1961
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1962
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1963
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1964
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1965
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1966
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1967
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1968
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1969
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1970
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1971
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1972
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1973
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1974
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1975
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1976
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1977
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1978
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1979
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1980
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1981
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1982
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1983
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1984
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1985
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1986
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1987
- <charge>3</charge>
1988
- <peptide_probability>1.69E-8</peptide_probability>
1989
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1990
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1991
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1992
- <rsp>1</rsp>
1993
- <ions>19/44</ions>
1994
- <count>1</count>
1995
- <tic>7201</tic>
1996
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1997
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1998
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1999
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2000
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2001
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2002
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2003
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2004
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2005
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2006
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2007
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2008
- <ions>18/26</ions>
2009
- <count>1</count>
2010
- <tic>7912</tic>
2011
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2012
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2013
- <file>7MIX_STD_110802_1, 1373</file>
2014
- <sequence>R.APLDNDIGVSEATR.I</sequence>
2015
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2016
- <deltamass>0.29</deltamass>
2017
- <charge>2</charge>
2018
- <peptide_probability>1.69E-8</peptide_probability>
2019
- <xcorr>3.499</xcorr>
2020
- <deltacn>0.487</deltacn>
2021
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2022
- <rsp>1</rsp>
2023
- <ions>17/26</ions>
2024
- <count>1</count>
2025
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2026
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2027
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2028
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2029
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2030
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2031
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2032
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2033
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2034
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2035
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2036
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2037
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2038
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2039
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2040
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2041
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2042
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2043
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2044
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2045
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2046
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2047
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2048
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2049
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2050
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2051
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2052
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2053
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2054
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2055
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2056
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2057
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2058
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2059
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2060
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2061
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2062
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2063
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2064
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2065
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2066
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2067
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2068
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2069
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2070
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2071
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2072
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2073
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2074
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2075
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2076
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2077
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2078
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2079
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2080
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2081
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2082
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2083
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2084
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2085
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2086
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2087
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2088
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2089
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2090
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2091
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2092
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2093
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2094
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2095
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2096
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2097
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2098
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2099
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2100
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2101
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2102
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2103
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2104
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2105
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2106
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2107
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2108
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2109
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2110
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2111
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2112
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2113
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2114
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2115
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2116
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2117
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2118
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2119
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2120
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2121
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2122
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2123
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2124
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2125
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2126
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2127
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2128
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2129
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2130
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2131
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2132
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2133
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2134
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2135
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2136
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2137
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2138
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2139
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2140
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2141
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2142
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2143
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2144
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2145
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2146
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2147
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2148
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2149
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2150
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2151
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2152
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2153
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2154
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2155
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2156
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2157
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2158
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2159
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2160
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2161
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2162
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2163
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2164
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2165
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2166
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2167
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2168
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2169
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2170
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2171
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2172
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2173
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2174
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2175
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2176
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2177
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2178
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2179
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2180
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2181
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2182
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2183
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2184
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2185
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2186
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2187
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2188
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2189
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2190
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2191
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2192
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2193
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2194
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2195
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2196
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2197
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2198
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2199
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2200
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2201
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2202
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2203
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2204
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2205
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2206
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2207
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2208
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2209
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2210
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2211
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2212
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2213
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2214
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2215
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2216
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2217
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2218
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2219
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2220
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2221
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2222
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2223
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2224
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2225
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2227
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2228
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2229
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2230
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2232
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2233
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2234
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2235
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2236
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2237
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2238
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2241
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2242
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2243
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2244
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2245
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2246
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2247
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2248
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2249
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2250
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2251
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2252
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2253
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2254
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2257
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2258
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2260
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2262
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2263
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2264
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2265
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2266
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2267
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2268
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2272
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2277
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2278
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2279
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2280
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2281
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2282
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2283
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2287
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2293
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2294
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2295
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2296
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2307
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2308
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2309
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2311
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2320
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2322
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2323
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2324
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2325
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2326
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2327
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2328
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2337
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2338
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2340
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2368
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2369
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2370
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2371
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2409
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2424
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2427
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2441
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2457
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2469
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2470
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2471
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2472
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2479
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2484
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2485
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2486
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2487
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2501
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2502
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2516
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2518
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2519
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2528
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2529
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2530
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2531
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2532
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2543
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2545
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2546
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2547
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2559
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2560
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2561
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2562
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2573
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2574
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2575
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2576
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2603
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2604
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2606
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2607
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2619
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2620
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2621
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2622
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2647
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2648
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2649
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2650
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2679
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2958
- <sp>522.0</sp>
2959
- <rsp>1</rsp>
2960
- <ions>12/14</ions>
2961
- <count>0</count>
2962
- <tic>5005</tic>
2963
- </peptide>
2964
- </protein>
2965
- <protein>
2966
- <reference>gi|127134|sp|P05978|MLE3_MOUSE Myosin light chain 3, skeletal muscle isoform (A2 catalytic) (Alkali</reference>
2967
- <protein_probability>3.13E-6</protein_probability>
2968
- <consensus_score>36.2</consensus_score>
2969
- <Sf>0.00</Sf>
2970
- <unified_score>0</unified_score>
2971
- <coverage>0.0</coverage>
2972
- <pI>0.0</pI>
2973
- <weight>16599.7</weight>
2974
- <accession>127134</accession>
2975
- <peptide>
2976
- <file>7MIX_STD_110802_1, 518</file>
2977
- <sequence>R.ALGTNPTNAEVK.K</sequence>
2978
- <mass>1215.34</mass>
2979
- <deltamass>0.46</deltamass>
2980
- <charge>2</charge>
2981
- <peptide_probability>3.13E-6</peptide_probability>
2982
- <xcorr>2.080</xcorr>
2983
- <deltacn>0.300</deltacn>
2984
- <sp>403.7</sp>
2985
- <rsp>1</rsp>
2986
- <ions>12/22</ions>
2987
- <count>1</count>
2988
- <tic>5915</tic>
2989
- </peptide>
2990
- <peptide>
2991
- <file>7MIX_STD_110802_1, 521</file>
2992
- <sequence>R.ALGTNPTNAEVK.K</sequence>
2993
- <mass>1215.34</mass>
2994
- <deltamass>0.23</deltamass>
2995
- <charge>2</charge>
2996
- <peptide_probability>3.13E-6</peptide_probability>
2997
- <xcorr>2.968</xcorr>
2998
- <deltacn>0.347</deltacn>
2999
- <sp>806.5</sp>
3000
- <rsp>1</rsp>
3001
- <ions>18/22</ions>
3002
- <count>1</count>
3003
- <tic>4981</tic>
3004
- </peptide>
3005
- <peptide>
3006
- <file>7MIX_STD_110802_1, 744</file>
3007
- <sequence>K.VLGNPSNEEMNAK.K</sequence>
3008
- <mass>1403.54</mass>
3009
- <deltamass>0.09</deltamass>
3010
- <charge>2</charge>
3011
- <peptide_probability>3.13E-6</peptide_probability>
3012
- <xcorr>3.246</xcorr>
3013
- <deltacn>0.520</deltacn>
3014
- <sp>551.2</sp>
3015
- <rsp>1</rsp>
3016
- <ions>16/24</ions>
3017
- <count>1</count>
3018
- <tic>4406</tic>
3019
- </peptide>
3020
- <peptide>
3021
- <file>7MIX_STD_110802_1, 747</file>
3022
- <sequence>K.VLGNPSNEEMNAK.K</sequence>
3023
- <mass>1403.54</mass>
3024
- <deltamass>0.38</deltamass>
3025
- <charge>2</charge>
3026
- <peptide_probability>3.13E-6</peptide_probability>
3027
- <xcorr>3.300</xcorr>
3028
- <deltacn>0.470</deltacn>
3029
- <sp>525.6</sp>
3030
- <rsp>1</rsp>
3031
- <ions>15/24</ions>
3032
- <count>1</count>
3033
- <tic>4407</tic>
3034
- </peptide>
3035
- <peptide>
3036
- <file>7MIX_STD_110802_1, 2573</file>
3037
- <sequence>K.ITLSQVGDVLR.A</sequence>
3038
- <mass>1201.40</mass>
3039
- <deltamass>0.32</deltamass>
3040
- <charge>2</charge>
3041
- <peptide_probability>3.13E-6</peptide_probability>
3042
- <xcorr>3.751</xcorr>
3043
- <deltacn>0.468</deltacn>
3044
- <sp>1533.5</sp>
3045
- <rsp>1</rsp>
3046
- <ions>18/20</ions>
3047
- <count>3</count>
3048
- <tic>6711</tic>
3049
- </peptide>
3050
- <peptide>
3051
- <file>7MIX_STD_110802_1, 2582</file>
3052
- <sequence>K.ITLSQVGDVLR.A</sequence>
3053
- <mass>1201.40</mass>
3054
- <deltamass>1.03</deltamass>
3055
- <charge>2</charge>
3056
- <peptide_probability>3.13E-6</peptide_probability>
3057
- <xcorr>3.504</xcorr>
3058
- <deltacn>0.327</deltacn>
3059
- <sp>1392.3</sp>
3060
- <rsp>1</rsp>
3061
- <ions>17/20</ions>
3062
- <count>3</count>
3063
- <tic>8068</tic>
3064
- </peptide>
3065
- <peptide>
3066
- <file>7MIX_STD_110802_1, 3003</file>
3067
- <sequence>K.KVLGNPSNEEMNAKK.I</sequence>
3068
- <mass>1659.89</mass>
3069
- <deltamass>0.69</deltamass>
3070
- <charge>2</charge>
3071
- <peptide_probability>3.13E-6</peptide_probability>
3072
- <xcorr>0.826</xcorr>
3073
- <deltacn>0.147</deltacn>
3074
- <sp>71.1</sp>
3075
- <rsp>66</rsp>
3076
- <ions>6/28</ions>
3077
- <count>1</count>
3078
- <tic>5897</tic>
3079
- </peptide>
3080
- </protein>
3081
- <protein>
3082
- <reference>gi|17986273|ref|NP_524144.1| fast skeletal myosin alkali light chain 1 isoform 1f; A1 catalytic; A2</reference>
3083
- <protein_probability>3.13E-6</protein_probability>
3084
- <consensus_score>10.2</consensus_score>
3085
- <Sf>0.00</Sf>
3086
- <unified_score>0</unified_score>
3087
- <coverage>0.0</coverage>
3088
- <pI>0.0</pI>
3089
- <weight>21145.0</weight>
3090
- <accession>17986273</accession>
3091
- <peptide>
3092
- <file>7MIX_STD_110802_1, 2573</file>
3093
- <sequence>K.ITLSQVGDVLR.A</sequence>
3094
- <mass>1201.40</mass>
3095
- <deltamass>0.32</deltamass>
3096
- <charge>2</charge>
3097
- <peptide_probability>3.13E-6</peptide_probability>
3098
- <xcorr>3.751</xcorr>
3099
- <deltacn>0.468</deltacn>
3100
- <sp>1533.5</sp>
3101
- <rsp>1</rsp>
3102
- <ions>18/20</ions>
3103
- <count>3</count>
3104
- <tic>0</tic>
3105
- </peptide>
3106
- <peptide>
3107
- <file>7MIX_STD_110802_1, 2582</file>
3108
- <sequence>K.ITLSQVGDVLR.A</sequence>
3109
- <mass>1201.40</mass>
3110
- <deltamass>1.03</deltamass>
3111
- <charge>2</charge>
3112
- <peptide_probability>3.13E-6</peptide_probability>
3113
- <xcorr>3.504</xcorr>
3114
- <deltacn>0.327</deltacn>
3115
- <sp>1392.3</sp>
3116
- <rsp>1</rsp>
3117
- <ions>17/20</ions>
3118
- <count>3</count>
3119
- <tic>0</tic>
3120
- </peptide>
3121
- </protein>
3122
- <protein>
3123
- <reference>gi|17986275|ref|NP_524146.1| fast skeletal myosin alkali light chain 1 isoform 3f; A1 catalytic; A2</reference>
3124
- <protein_probability>3.13E-6</protein_probability>
3125
- <consensus_score>10.2</consensus_score>
3126
- <Sf>0.00</Sf>
3127
- <unified_score>0</unified_score>
3128
- <coverage>0.0</coverage>
3129
- <pI>0.0</pI>
3130
- <weight>16683.7</weight>
3131
- <accession>17986275</accession>
3132
- <peptide>
3133
- <file>7MIX_STD_110802_1, 2573</file>
3134
- <sequence>K.ITLSQVGDVLR.A</sequence>
3135
- <mass>1201.40</mass>
3136
- <deltamass>0.32</deltamass>
3137
- <charge>2</charge>
3138
- <peptide_probability>3.13E-6</peptide_probability>
3139
- <xcorr>3.751</xcorr>
3140
- <deltacn>0.468</deltacn>
3141
- <sp>1533.5</sp>
3142
- <rsp>1</rsp>
3143
- <ions>18/20</ions>
3144
- <count>3</count>
3145
- <tic>0</tic>
3146
- </peptide>
3147
- <peptide>
3148
- <file>7MIX_STD_110802_1, 2582</file>
3149
- <sequence>K.ITLSQVGDVLR.A</sequence>
3150
- <mass>1201.40</mass>
3151
- <deltamass>1.03</deltamass>
3152
- <charge>2</charge>
3153
- <peptide_probability>3.13E-6</peptide_probability>
3154
- <xcorr>3.504</xcorr>
3155
- <deltacn>0.327</deltacn>
3156
- <sp>1392.3</sp>
3157
- <rsp>1</rsp>
3158
- <ions>17/20</ions>
3159
- <count>3</count>
3160
- <tic>0</tic>
3161
- </peptide>
3162
- </protein>
3163
- <protein>
3164
- <reference>gi|127129|sp|P05977|MLE1_MOUSE Myosin light chain 1, skeletal muscle isoform (MLC1F) (A1 catalytic)</reference>
3165
- <protein_probability>3.98E-6</protein_probability>
3166
- <consensus_score>38.2</consensus_score>
3167
- <Sf>0.00</Sf>
3168
- <unified_score>0</unified_score>
3169
- <coverage>0.0</coverage>
3170
- <pI>0.0</pI>
3171
- <weight>20594.4</weight>
3172
- <accession>127129</accession>
3173
- <peptide>
3174
- <file>7MIX_STD_110802_1, 518</file>
3175
- <sequence>R.ALGTNPTNAEVK.K</sequence>
3176
- <mass>1215.34</mass>
3177
- <deltamass>0.46</deltamass>
3178
- <charge>2</charge>
3179
- <peptide_probability>3.98E-6</peptide_probability>
3180
- <xcorr>2.080</xcorr>
3181
- <deltacn>0.300</deltacn>
3182
- <sp>403.7</sp>
3183
- <rsp>1</rsp>
3184
- <ions>12/22</ions>
3185
- <count>1</count>
3186
- <tic>0</tic>
3187
- </peptide>
3188
- <peptide>
3189
- <file>7MIX_STD_110802_1, 521</file>
3190
- <sequence>R.ALGTNPTNAEVK.K</sequence>
3191
- <mass>1215.34</mass>
3192
- <deltamass>0.23</deltamass>
3193
- <charge>2</charge>
3194
- <peptide_probability>3.98E-6</peptide_probability>
3195
- <xcorr>2.968</xcorr>
3196
- <deltacn>0.347</deltacn>
3197
- <sp>806.5</sp>
3198
- <rsp>1</rsp>
3199
- <ions>18/22</ions>
3200
- <count>1</count>
3201
- <tic>0</tic>
3202
- </peptide>
3203
- <peptide>
3204
- <file>7MIX_STD_110802_1, 744</file>
3205
- <sequence>K.VLGNPSNEEMNAK.K</sequence>
3206
- <mass>1403.54</mass>
3207
- <deltamass>0.09</deltamass>
3208
- <charge>2</charge>
3209
- <peptide_probability>3.98E-6</peptide_probability>
3210
- <xcorr>3.246</xcorr>
3211
- <deltacn>0.520</deltacn>
3212
- <sp>551.2</sp>
3213
- <rsp>1</rsp>
3214
- <ions>16/24</ions>
3215
- <count>1</count>
3216
- <tic>0</tic>
3217
- </peptide>
3218
- <peptide>
3219
- <file>7MIX_STD_110802_1, 747</file>
3220
- <sequence>K.VLGNPSNEEMNAK.K</sequence>
3221
- <mass>1403.54</mass>
3222
- <deltamass>0.38</deltamass>
3223
- <charge>2</charge>
3224
- <peptide_probability>3.98E-6</peptide_probability>
3225
- <xcorr>3.300</xcorr>
3226
- <deltacn>0.470</deltacn>
3227
- <sp>525.6</sp>
3228
- <rsp>1</rsp>
3229
- <ions>15/24</ions>
3230
- <count>1</count>
3231
- <tic>0</tic>
3232
- </peptide>
3233
- <peptide>
3234
- <file>7MIX_STD_110802_1, 2573</file>
3235
- <sequence>K.ITLSQVGDVLR.A</sequence>
3236
- <mass>1201.40</mass>
3237
- <deltamass>0.32</deltamass>
3238
- <charge>2</charge>
3239
- <peptide_probability>3.98E-6</peptide_probability>
3240
- <xcorr>3.751</xcorr>
3241
- <deltacn>0.468</deltacn>
3242
- <sp>1533.5</sp>
3243
- <rsp>1</rsp>
3244
- <ions>18/20</ions>
3245
- <count>3</count>
3246
- <tic>0</tic>
3247
- </peptide>
3248
- <peptide>
3249
- <file>7MIX_STD_110802_1, 2582</file>
3250
- <sequence>K.ITLSQVGDVLR.A</sequence>
3251
- <mass>1201.40</mass>
3252
- <deltamass>1.03</deltamass>
3253
- <charge>2</charge>
3254
- <peptide_probability>3.98E-6</peptide_probability>
3255
- <xcorr>3.504</xcorr>
3256
- <deltacn>0.327</deltacn>
3257
- <sp>1392.3</sp>
3258
- <rsp>1</rsp>
3259
- <ions>17/20</ions>
3260
- <count>3</count>
3261
- <tic>0</tic>
3262
- </peptide>
3263
- <peptide>
3264
- <file>7MIX_STD_110802_1, 3003</file>
3265
- <sequence>K.KVLGNPSNEEMNAKK.I</sequence>
3266
- <mass>1659.89</mass>
3267
- <deltamass>0.69</deltamass>
3268
- <charge>2</charge>
3269
- <peptide_probability>3.98E-6</peptide_probability>
3270
- <xcorr>0.826</xcorr>
3271
- <deltacn>0.147</deltacn>
3272
- <sp>71.1</sp>
3273
- <rsp>66</rsp>
3274
- <ions>6/28</ions>
3275
- <count>1</count>
3276
- <tic>0</tic>
3277
- </peptide>
3278
- <peptide>
3279
- <file>7MIX_STD_110802_1, 2003</file>
3280
- <sequence>K.IDLSAIKIEFSK.E</sequence>
3281
- <mass>1364.61</mass>
3282
- <deltamass>1.18</deltamass>
3283
- <charge>2</charge>
3284
- <peptide_probability>3.98E-6</peptide_probability>
3285
- <xcorr>1.146</xcorr>
3286
- <deltacn>1.100</deltacn>
3287
- <sp>281.6</sp>
3288
- <rsp>9</rsp>
3289
- <ions>9/22</ions>
3290
- <count>1</count>
3291
- <tic>9511</tic>
3292
- </peptide>
3293
- </protein>
3294
- <protein>
3295
- <reference>INV_gi|30148742|ref|XP_292953.2| similar to cytochrome c oxidase subunit I [Homo sapiens]</reference>
3296
- <protein_probability>1.08E-5</protein_probability>
3297
- <consensus_score>10.1</consensus_score>
3298
- <Sf>0.00</Sf>
3299
- <unified_score>0</unified_score>
3300
- <coverage>0.0</coverage>
3301
- <pI>0.0</pI>
3302
- <weight>30980.8</weight>
3303
- <accession>0</accession>
3304
- <peptide>
3305
- <file>7MIX_STD_110802_1, 4232</file>
3306
- <sequence>K.GCQQNKAHNRPERIWGSETTQQLGGTHQK.T</sequence>
3307
- <mass>3291.57</mass>
3308
- <deltamass>0.38</deltamass>
3309
- <charge>3</charge>
3310
- <peptide_probability>1.08E-5</peptide_probability>
3311
- <xcorr>1.227</xcorr>
3312
- <deltacn>0.068</deltacn>
3313
- <sp>265.6</sp>
3314
- <rsp>2</rsp>
3315
- <ions>18/112</ions>
3316
- <count>0</count>
3317
- <tic>9717</tic>
3318
- </peptide>
3319
- </protein>
3320
- <protein>
3321
- <reference>gi|29739414|ref|XP_294015.1| similar to Glyceraldehyde 3-phosphate dehydrogenase, liver (GAPDH) [Ho</reference>
3322
- <protein_probability>1.41E-5</protein_probability>
3323
- <consensus_score>18.2</consensus_score>
3324
- <Sf>0.00</Sf>
3325
- <unified_score>0</unified_score>
3326
- <coverage>0.0</coverage>
3327
- <pI>0.0</pI>
3328
- <weight>26916.7</weight>
3329
- <accession>29739414</accession>
3330
- <peptide>
3331
- <file>7MIX_STD_110802_1, 2628 - 2630</file>
3332
- <sequence>K.LISWYDNEFGYSNR.V</sequence>
3333
- <mass>1764.87</mass>
3334
- <deltamass>0.77</deltamass>
3335
- <charge>2</charge>
3336
- <peptide_probability>1.41E-5</peptide_probability>
3337
- <xcorr>3.978</xcorr>
3338
- <deltacn>0.490</deltacn>
3339
- <sp>1722.1</sp>
3340
- <rsp>1</rsp>
3341
- <ions>19/26</ions>
3342
- <count>0</count>
3343
- <tic>9970</tic>
3344
- </peptide>
3345
- <peptide>
3346
- <file>7MIX_STD_110802_1, 1838</file>
3347
- <sequence>K.YYDIKKMMK.Q</sequence>
3348
- <mass>1220.53</mass>
3349
- <deltamass>1.31</deltamass>
3350
- <charge>1</charge>
3351
- <peptide_probability>1.41E-5</peptide_probability>
3352
- <xcorr>1.142</xcorr>
3353
- <deltacn>0.298</deltacn>
3354
- <sp>239.8</sp>
3355
- <rsp>4</rsp>
3356
- <ions>9/16</ions>
3357
- <count>0</count>
3358
- <tic>6308</tic>
3359
- </peptide>
3360
- </protein>
3361
- <protein>
3362
- <reference>gi|1786543|gb|AAC73450.1| 3-(3-hydroxyphenyl)propionate hydroxylase [Escherichia coli K12]</reference>
3363
- <protein_probability>1.54E-5</protein_probability>
3364
- <consensus_score>20.1</consensus_score>
3365
- <Sf>0.00</Sf>
3366
- <unified_score>0</unified_score>
3367
- <coverage>0.0</coverage>
3368
- <pI>0.0</pI>
3369
- <weight>62185.3</weight>
3370
- <accession>1786543</accession>
3371
- <peptide>
3372
- <file>7MIX_STD_110802_1, 902</file>
3373
- <sequence>K.VLPNPDNVELIR.Q</sequence>
3374
- <mass>1379.59</mass>
3375
- <deltamass>1.22</deltamass>
3376
- <charge>3</charge>
3377
- <peptide_probability>1.54E-5</peptide_probability>
3378
- <xcorr>1.742</xcorr>
3379
- <deltacn>0.023</deltacn>
3380
- <sp>408.4</sp>
3381
- <rsp>3</rsp>
3382
- <ions>16/44</ions>
3383
- <count>0</count>
3384
- <tic>4697</tic>
3385
- </peptide>
3386
- <peptide>
3387
- <file>7MIX_STD_110802_1, 4428</file>
3388
- <sequence>R.ALGTR.F</sequence>
3389
- <mass>517.60</mass>
3390
- <deltamass>1.33</deltamass>
3391
- <charge>1</charge>
3392
- <peptide_probability>1.54E-5</peptide_probability>
3393
- <xcorr>0.606</xcorr>
3394
- <deltacn>0.095</deltacn>
3395
- <sp>30.7</sp>
3396
- <rsp>20</rsp>
3397
- <ions>4/8</ions>
3398
- <count>3</count>
3399
- <tic>2762</tic>
3400
- </peptide>
3401
- </protein>
3402
- <protein>
3403
- <reference>gi|4502027|ref|NP_000468.1| albumin precursor; PRO0883 protein [Homo sapiens]</reference>
3404
- <protein_probability>1.67E-5</protein_probability>
3405
- <consensus_score>74.2</consensus_score>
3406
- <Sf>0.00</Sf>
3407
- <unified_score>0</unified_score>
3408
- <coverage>0.0</coverage>
3409
- <pI>0.0</pI>
3410
- <weight>69366.4</weight>
3411
- <accession>4502027</accession>
3412
- <peptide>
3413
- <file>7MIX_STD_110802_1, 333 - 335</file>
3414
- <sequence>K.LVTDLTK.V</sequence>
3415
- <mass>789.94</mass>
3416
- <deltamass>0.54</deltamass>
3417
- <charge>1</charge>
3418
- <peptide_probability>1.67E-5</peptide_probability>
3419
- <xcorr>1.806</xcorr>
3420
- <deltacn>0.079</deltacn>
3421
- <sp>319.6</sp>
3422
- <rsp>1</rsp>
3423
- <ions>8/12</ions>
3424
- <count>1</count>
3425
- <tic>0</tic>
3426
- </peptide>
3427
- <peptide>
3428
- <file>7MIX_STD_110802_1, 1851</file>
3429
- <sequence>R.KVPQVSTPTLVEVSR.S</sequence>
3430
- <mass>1640.91</mass>
3431
- <deltamass>0.07</deltamass>
3432
- <charge>3</charge>
3433
- <peptide_probability>1.67E-5</peptide_probability>
3434
- <xcorr>3.093</xcorr>
3435
- <deltacn>0.362</deltacn>
3436
- <sp>957.8</sp>
3437
- <rsp>1</rsp>
3438
- <ions>24/56</ions>
3439
- <count>1</count>
3440
- <tic>0</tic>
3441
- </peptide>
3442
- <peptide>
3443
- <file>7MIX_STD_110802_1, 1854</file>
3444
- <sequence>R.KVPQVSTPTLVEVSR.S</sequence>
3445
- <mass>1640.91</mass>
3446
- <deltamass>0.14</deltamass>
3447
- <charge>3</charge>
3448
- <peptide_probability>1.67E-5</peptide_probability>
3449
- <xcorr>3.801</xcorr>
3450
- <deltacn>0.409</deltacn>
3451
- <sp>1377.0</sp>
3452
- <rsp>1</rsp>
3453
- <ions>28/56</ions>
3454
- <count>1</count>
3455
- <tic>0</tic>
3456
- </peptide>
3457
- <peptide>
3458
- <file>7MIX_STD_110802_1, 1899</file>
3459
- <sequence>K.SLHTLFGDK.L</sequence>
3460
- <mass>1018.15</mass>
3461
- <deltamass>0.77</deltamass>
3462
- <charge>2</charge>
3463
- <peptide_probability>1.67E-5</peptide_probability>
3464
- <xcorr>1.768</xcorr>
3465
- <deltacn>0.203</deltacn>
3466
- <sp>781.3</sp>
3467
- <rsp>1</rsp>
3468
- <ions>12/16</ions>
3469
- <count>0</count>
3470
- <tic>7797</tic>
3471
- </peptide>
3472
- <peptide>
3473
- <file>7MIX_STD_110802_1, 3087</file>
3474
- <sequence>K.VFDEFKPLVEEPQNLIK.Q</sequence>
3475
- <mass>2046.35</mass>
3476
- <deltamass>0.53</deltamass>
3477
- <charge>3</charge>
3478
- <peptide_probability>1.67E-5</peptide_probability>
3479
- <xcorr>4.553</xcorr>
3480
- <deltacn>0.434</deltacn>
3481
- <sp>1646.1</sp>
3482
- <rsp>1</rsp>
3483
- <ions>35/64</ions>
3484
- <count>0</count>
3485
- <tic>5126</tic>
3486
- </peptide>
3487
- <peptide>
3488
- <file>7MIX_STD_110802_1, 3501</file>
3489
- <sequence>R.RHPYFYAPELLFFAK.R</sequence>
3490
- <mass>1900.21</mass>
3491
- <deltamass>1.31</deltamass>
3492
- <charge>3</charge>
3493
- <peptide_probability>1.67E-5</peptide_probability>
3494
- <xcorr>3.233</xcorr>
3495
- <deltacn>0.394</deltacn>
3496
- <sp>1249.4</sp>
3497
- <rsp>1</rsp>
3498
- <ions>28/56</ions>
3499
- <count>0</count>
3500
- <tic>6564</tic>
3501
- </peptide>
3502
- <peptide>
3503
- <file>7MIX_STD_110802_1, 3782</file>
3504
- <sequence>K.DVFLGMFLYEYAR.R</sequence>
3505
- <mass>1624.88</mass>
3506
- <deltamass>0.89</deltamass>
3507
- <charge>2</charge>
3508
- <peptide_probability>1.67E-5</peptide_probability>
3509
- <xcorr>3.012</xcorr>
3510
- <deltacn>0.433</deltacn>
3511
- <sp>2065.3</sp>
3512
- <rsp>1</rsp>
3513
- <ions>20/24</ions>
3514
- <count>0</count>
3515
- <tic>7987</tic>
3516
- </peptide>
3517
- <peptide>
3518
- <file>7MIX_STD_110802_1, 3785</file>
3519
- <sequence>K.DVFLGMFLYEYAR.R</sequence>
3520
- <mass>1624.88</mass>
3521
- <deltamass>0.81</deltamass>
3522
- <charge>2</charge>
3523
- <peptide_probability>1.67E-5</peptide_probability>
3524
- <xcorr>4.538</xcorr>
3525
- <deltacn>0.555</deltacn>
3526
- <sp>1589.3</sp>
3527
- <rsp>1</rsp>
3528
- <ions>19/24</ions>
3529
- <count>0</count>
3530
- <tic>7312</tic>
3531
- </peptide>
3532
- <peptide>
3533
- <file>7MIX_STD_110802_1, 4826</file>
3534
- <sequence>K.VHTECCHGDLLECADDR.A</sequence>
3535
- <mass>1917.09</mass>
3536
- <deltamass>1.37</deltamass>
3537
- <charge>2</charge>
3538
- <peptide_probability>1.67E-5</peptide_probability>
3539
- <xcorr>0.695</xcorr>
3540
- <deltacn>0.130</deltacn>
3541
- <sp>88.1</sp>
3542
- <rsp>24</rsp>
3543
- <ions>6/32</ions>
3544
- <count>0</count>
3545
- <tic>8544</tic>
3546
- </peptide>
3547
- <peptide>
3548
- <file>7MIX_STD_110802_1, 3567</file>
3549
- <sequence>K.LVNEVTEFAKTCVADESAENCDK.S</sequence>
3550
- <mass>2516.74</mass>
3551
- <deltamass>1.02</deltamass>
3552
- <charge>3</charge>
3553
- <peptide_probability>1.67E-5</peptide_probability>
3554
- <xcorr>1.076</xcorr>
3555
- <deltacn>0.154</deltacn>
3556
- <sp>253.7</sp>
3557
- <rsp>45</rsp>
3558
- <ions>18/88</ions>
3559
- <count>0</count>
3560
- <tic>10704</tic>
3561
- </peptide>
3562
- <peptide>
3563
- <file>7MIX_STD_110802_1, 921</file>
3564
- <sequence>K.EQLKAVMDDFAAFVEK.C</sequence>
3565
- <mass>1842.11</mass>
3566
- <deltamass>0.61</deltamass>
3567
- <charge>3</charge>
3568
- <peptide_probability>1.67E-5</peptide_probability>
3569
- <xcorr>1.243</xcorr>
3570
- <deltacn>1.100</deltacn>
3571
- <sp>364.1</sp>
3572
- <rsp>10</rsp>
3573
- <ions>17/60</ions>
3574
- <count>0</count>
3575
- <tic>9714</tic>
3576
- </peptide>
3577
- </protein>
3578
- <protein>
3579
- <reference>gi|1790518|gb|AAD13464.1| putative enzyme [Escherichia coli K12]</reference>
3580
- <protein_probability>4.81E-5</protein_probability>
3581
- <consensus_score>10.1</consensus_score>
3582
- <Sf>0.00</Sf>
3583
- <unified_score>0</unified_score>
3584
- <coverage>0.0</coverage>
3585
- <pI>0.0</pI>
3586
- <weight>70869.1</weight>
3587
- <accession>1790518</accession>
3588
- <peptide>
3589
- <file>7MIX_STD_110802_1, 4434</file>
3590
- <sequence>K.WSYGEPLIRLIIAGPILMGCMFLMR.T</sequence>
3591
- <mass>2882.61</mass>
3592
- <deltamass>0.06</deltamass>
3593
- <charge>2</charge>
3594
- <peptide_probability>4.81E-5</peptide_probability>
3595
- <xcorr>1.054</xcorr>
3596
- <deltacn>0.315</deltacn>
3597
- <sp>145.4</sp>
3598
- <rsp>1</rsp>
3599
- <ions>10/48</ions>
3600
- <count>0</count>
3601
- <tic>4570</tic>
3602
- </peptide>
3603
- </protein>
3604
- <protein>
3605
- <reference>INV_gi|14729827|ref|XP_039231.1| hypothetical protein XP_039231 [Homo sapiens]</reference>
3606
- <protein_probability>7.50E-5</protein_probability>
3607
- <consensus_score>8.0</consensus_score>
3608
- <Sf>0.00</Sf>
3609
- <unified_score>0</unified_score>
3610
- <coverage>0.0</coverage>
3611
- <pI>0.0</pI>
3612
- <weight>13401.6</weight>
3613
- <accession>0</accession>
3614
- <peptide>
3615
- <file>7MIX_STD_110802_1, 5907</file>
3616
- <sequence>K.FYNLKCQSTLCYIR.S</sequence>
3617
- <mass>1753.08</mass>
3618
- <deltamass>0.47</deltamass>
3619
- <charge>2</charge>
3620
- <peptide_probability>7.50E-5</peptide_probability>
3621
- <xcorr>0.796</xcorr>
3622
- <deltacn>0.153</deltacn>
3623
- <sp>149.9</sp>
3624
- <rsp>3</rsp>
3625
- <ions>7/26</ions>
3626
- <count>0</count>
3627
- <tic>6682</tic>
3628
- </peptide>
3629
- </protein>
3630
- <protein>
3631
- <reference>gi|20539418|ref|XP_168226.1| hypothetical protein XP_168226 [Homo sapiens]</reference>
3632
- <protein_probability>1.17E-4</protein_probability>
3633
- <consensus_score>10.0</consensus_score>
3634
- <Sf>0.00</Sf>
3635
- <unified_score>0</unified_score>
3636
- <coverage>0.0</coverage>
3637
- <pI>0.0</pI>
3638
- <weight>12547.9</weight>
3639
- <accession>20539418</accession>
3640
- <peptide>
3641
- <file>7MIX_STD_110802_1, 3603</file>
3642
- <sequence>K.YSCVDLTSNWRK.C</sequence>
3643
- <mass>1472.65</mass>
3644
- <deltamass>0.84</deltamass>
3645
- <charge>2</charge>
3646
- <peptide_probability>1.17E-4</peptide_probability>
3647
- <xcorr>0.986</xcorr>
3648
- <deltacn>0.079</deltacn>
3649
- <sp>220.7</sp>
3650
- <rsp>3</rsp>
3651
- <ions>8/22</ions>
3652
- <count>0</count>
3653
- <tic>10421</tic>
3654
- </peptide>
3655
- </protein>
3656
- <protein>
3657
- <reference>INV_gi|10190730|ref|NP_065733.1| Cyt19 protein; likely ortholog of rat methyltransferase Cyt19; S-a</reference>
3658
- <protein_probability>1.36E-4</protein_probability>
3659
- <consensus_score>14.1</consensus_score>
3660
- <Sf>0.00</Sf>
3661
- <unified_score>0</unified_score>
3662
- <coverage>0.0</coverage>
3663
- <pI>0.0</pI>
3664
- <weight>37968.2</weight>
3665
- <accession>0</accession>
3666
- <peptide>
3667
- <file>7MIX_STD_110802_1, 3381</file>
3668
- <sequence>K.LVRYAEQLVQQKDPVLNIVCNSVVIDHSENK.I</sequence>
3669
- <mass>3553.05</mass>
3670
- <deltamass>0.41</deltamass>
3671
- <charge>3</charge>
3672
- <peptide_probability>1.36E-4</peptide_probability>
3673
- <xcorr>2.024</xcorr>
3674
- <deltacn>0.040</deltacn>
3675
- <sp>267.2</sp>
3676
- <rsp>2</rsp>
3677
- <ions>19/120</ions>
3678
- <count>0</count>
3679
- <tic>10788</tic>
3680
- </peptide>
3681
- <peptide>
3682
- <file>7MIX_STD_110802_1, 194</file>
3683
- <sequence>K.EGIPRILFDQAFRSNK.L</sequence>
3684
- <mass>1892.15</mass>
3685
- <deltamass>0.87</deltamass>
3686
- <charge>3</charge>
3687
- <peptide_probability>1.36E-4</peptide_probability>
3688
- <xcorr>0.888</xcorr>
3689
- <deltacn>1.100</deltacn>
3690
- <sp>77.8</sp>
3691
- <rsp>204</rsp>
3692
- <ions>14/60</ions>
3693
- <count>0</count>
3694
- <tic>3472</tic>
3695
- </peptide>
3696
- <peptide>
3697
- <file>7MIX_STD_110802_1, 3674</file>
3698
- <sequence>R.KLVQGYYTQVDKQIEADR.L</sequence>
3699
- <mass>2155.40</mass>
3700
- <deltamass>0.25</deltamass>
3701
- <charge>3</charge>
3702
- <peptide_probability>1.36E-4</peptide_probability>
3703
- <xcorr>1.128</xcorr>
3704
- <deltacn>1.100</deltacn>
3705
- <sp>212.3</sp>
3706
- <rsp>172</rsp>
3707
- <ions>14/68</ions>
3708
- <count>0</count>
3709
- <tic>11021</tic>
3710
- </peptide>
3711
- </protein>
3712
- <protein>
3713
- <reference>INV_gi|30149386|ref|XP_089243.6| similar to hypothetical protein FLJ90022 [Homo sapiens]</reference>
3714
- <protein_probability>1.85E-4</protein_probability>
3715
- <consensus_score>18.1</consensus_score>
3716
- <Sf>0.00</Sf>
3717
- <unified_score>0</unified_score>
3718
- <coverage>0.0</coverage>
3719
- <pI>0.0</pI>
3720
- <weight>38777.6</weight>
3721
- <accession>0</accession>
3722
- <peptide>
3723
- <file>7MIX_STD_110802_1, 5277</file>
3724
- <sequence>R.RLPARPVSAAAGGARLHQQR.V</sequence>
3725
- <mass>2113.42</mass>
3726
- <deltamass>1.39</deltamass>
3727
- <charge>3</charge>
3728
- <peptide_probability>1.85E-4</peptide_probability>
3729
- <xcorr>0.958</xcorr>
3730
- <deltacn>0.170</deltacn>
3731
- <sp>65.8</sp>
3732
- <rsp>3</rsp>
3733
- <ions>10/76</ions>
3734
- <count>0</count>
3735
- <tic>2975</tic>
3736
- </peptide>
3737
- <peptide>
3738
- <file>7MIX_STD_110802_1, 1964</file>
3739
- <sequence>R.RLPARPVSAAAGGAR.L</sequence>
3740
- <mass>1450.67</mass>
3741
- <deltamass>0.63</deltamass>
3742
- <charge>2</charge>
3743
- <peptide_probability>1.85E-4</peptide_probability>
3744
- <xcorr>1.221</xcorr>
3745
- <deltacn>0.187</deltacn>
3746
- <sp>259.0</sp>
3747
- <rsp>1</rsp>
3748
- <ions>12/28</ions>
3749
- <count>0</count>
3750
- <tic>7803</tic>
3751
- </peptide>
3752
- </protein>
3753
- </sequestresults>