divvy_proteomics 0.0.1
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.
- data/.document +5 -0
- data/.rspec +1 -0
- data/Gemfile +13 -0
- data/LICENSE.txt +20 -0
- data/README.md +45 -0
- data/Rakefile +49 -0
- data/VERSION +1 -0
- data/bin/divvy_spectra +362 -0
- data/divvy_proteomics.gemspec +74 -0
- data/lib/divvy_proteomics.rb +0 -0
- data/spec/data/merge_definition.csv +1 -0
- data/spec/data/multiply_mapped_spectra.csv +95 -0
- data/spec/data/single_protein.csv +52 -0
- data/spec/data/single_protein_with_aliases.csv +53 -0
- data/spec/data/three_proteins.csv +76 -0
- data/spec/data/three_proteins_meant_for_merge.csv +81 -0
- data/spec/data/three_proteins_with_contaminant.csv +87 -0
- data/spec/divvy_proteomics_spec.rb +106 -0
- data/spec/spec_helper.rb +12 -0
- metadata +166 -0
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# Generated by jeweler
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# DO NOT EDIT THIS FILE DIRECTLY
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# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
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# -*- encoding: utf-8 -*-
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Gem::Specification.new do |s|
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s.name = "divvy_proteomics"
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s.version = "0.0.1"
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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s.authors = ["Ben J Woodcroft"]
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s.date = "2013-04-13"
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s.description = "divvy up spectra from DTASelect files in a somewhat parsimonious way"
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s.email = "donttrustben@gmail.com"
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s.executables = ["divvy_spectra"]
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s.extra_rdoc_files = [
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"LICENSE.txt",
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"README.md"
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]
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s.files = [
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".document",
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".rspec",
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"Gemfile",
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"LICENSE.txt",
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"README.md",
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"Rakefile",
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"VERSION",
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"bin/divvy_spectra",
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"divvy_proteomics.gemspec",
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"lib/divvy_proteomics.rb",
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"spec/data/merge_definition.csv",
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"spec/data/multiply_mapped_spectra.csv",
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"spec/data/single_protein.csv",
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"spec/data/single_protein_with_aliases.csv",
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"spec/data/three_proteins.csv",
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"spec/data/three_proteins_meant_for_merge.csv",
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"spec/data/three_proteins_with_contaminant.csv",
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"spec/divvy_proteomics_spec.rb",
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"spec/spec_helper.rb"
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]
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s.homepage = "http://github.com/wwood/divvy_proteomics"
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s.licenses = ["MIT"]
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s.require_paths = ["lib"]
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s.rubygems_version = "1.8.24"
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s.summary = "divvy up spectra from DTASelect files in a parsimonious way"
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if s.respond_to? :specification_version then
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s.specification_version = 3
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if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
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s.add_runtime_dependency(%q<bio-logger>, [">= 0"])
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s.add_development_dependency(%q<systemu>, [">= 0"])
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s.add_development_dependency(%q<rspec>, [">= 2.8.0"])
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s.add_development_dependency(%q<rdoc>, [">= 3.12"])
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s.add_development_dependency(%q<bundler>, [">= 1.0.0"])
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s.add_development_dependency(%q<jeweler>, [">= 1.8.4"])
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else
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s.add_dependency(%q<bio-logger>, [">= 0"])
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s.add_dependency(%q<systemu>, [">= 0"])
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s.add_dependency(%q<rspec>, [">= 2.8.0"])
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s.add_dependency(%q<rdoc>, [">= 3.12"])
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s.add_dependency(%q<bundler>, [">= 1.0.0"])
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s.add_dependency(%q<jeweler>, [">= 1.8.4"])
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end
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else
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s.add_dependency(%q<bio-logger>, [">= 0"])
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s.add_dependency(%q<systemu>, [">= 0"])
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s.add_dependency(%q<rspec>, [">= 2.8.0"])
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s.add_dependency(%q<rdoc>, [">= 3.12"])
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s.add_dependency(%q<bundler>, [">= 1.0.0"])
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s.add_dependency(%q<jeweler>, [">= 1.8.4"])
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end
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end
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File without changes
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eDeep20120820:eD1_1639_1 eDeep20120820:eD1_1639_1_merge
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DTASelect v1.9
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/auto/gtl/ms/Abisko_Soils/Field_Sampling_Aug_2010/SurfDeep/Erio_Deep_Aug2010_27Jun_TR1/Frac1/analysis/tryp_edeep_20120820_Mstor4.3.2/sequest
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/auto/gtl/db/Abisko_Soils/edeep_20120820_Mstor4.3.2_cntm_psm
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SEQUEST v.27 in SQT format.
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--DB -p 2 -r 1000
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true Use criteria
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1.8 Minimum +1 XCorr
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2.5 Minimum +2 XCorr
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3.5 Minimum +3 XCorr
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0.08 Minimum DeltCN
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1 Minimum charge state
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3 Maximum charge state
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0 Minimum ion proportion
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1000 Maximum Sp rank
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-1 Minimum Sp score
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Include Modified peptide inclusion
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Any Tryptic status requirement
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true Multiple, ambiguous IDs allowed
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Ignore Peptide validation handling
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XCorr Purge duplicate peptides by protein
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false Include only loci with unique peptide
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false Remove subset proteins
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Ignore Locus validation handling
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0 Minimum modified peptides per locus
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1000 Minimum redundancy for low coverage loci
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2 Minimum peptides per locus
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Locus Sequence Count Spectrum Count Sequence Coverage Length MolWt pI Validation Status Descriptive Name
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Unique FileName XCorr DeltCN M+H+ CalcM+H+ TotalIntensity SpRank SpScore IonProportion Redundancy Sequence
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Mstor_v4.3.2:1344 15 188 58.6% 249 27617 8.7 U Methanoflorens_stordalmirensis_v4.3.2_01361 Methyl-coenzyme M reductase I subunit gamma
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20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
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20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05321.05321.1 1.8605 0.2699 822.3913 822.9573 3293.9 1 262 75 2 R.SWMAATR.F
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20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
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20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15208.15208.2 4.339 0.4065 1384.6218 1385.5929 6844.7 1 2135.8 90.9 35 K.MLLESEAFDCAR.S
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20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
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20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
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20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
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20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
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20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
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20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
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20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
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20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
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20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
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eDeep20120820:eD1_8237_2 16 220 57.4% 249 27683 8.9 U methyl-coenzyme M reductase gamma subunit # pI:8.94 MW:27683
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20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
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20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
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20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
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20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.14095.14095.2 4.8369 0.5277 1378.6663 1379.5707 9283.7 1 2692.6 90.9 56 K.MLLESEAFDPAR.S
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.13949.13949.1 2.4766 0.354 1380.67 1379.5707 4485.8 1 506.7 68.2 4 K.MLLESEAFDPAR.S
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_04.14749.14749.2 3.3302 0.2608 1777.8914 1779.0209 3944.1 8 231.6 46.7 9 K.MLLESEAFDPARSGVR.G
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20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
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20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
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20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
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20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
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20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
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20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
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20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
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20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
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20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
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eDeep20120820:eD1_1639_1 6 47 54.6% 97 10181 9.2 U chaperonin GroEL # pI:9.22 MW:10181
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.14607.14607.2 3.3369 0.4724 1576.8171 1577.8976 6120.3 1 1543.2 82.1 3 K.MANLGAQMVKEVASK.T
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.24627.24627.3 3.69 0.2962 2983.4954 2982.231 9369.6 1 1286.9 28.4 1 K.EVASKTSDVAGDGTTTATVLAQAIFNEGAR.L
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25402.25402.3 6.2951 0.4542 2466.2097 2467.6519 9066.5 1 4083.4 49 12 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25380.25380.2 5.5921 0.5669 2466.2104 2467.6519 7538.4 1 2687 64.6 4 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_02.08539.08539.2 3.2291 0.3305 1215.6385 1216.4381 4640.6 1 1013.9 77.3 4 R.LVAAGSNPMDIK.R
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.07029.07029.2 3.8934 0.3124 1371.7393 1372.6256 5850.5 1 1132.1 83.3 23 R.LVAAGSNPMDIKR.G
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eDeep20120820:eD1_13975_5 5 10 46.5% 114 12040 7.3 U chaperonin GroEL # pI:6.58 MW:12040
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2 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.03309.03309.1 2.2351 0.0941 701.4238 701.8412 3692.5 1 411.8 80 1 R.NVVIEK.S
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_06.10382.10382.2 3.3094 0.1685 1646.875 1647.8687 5179.8 1 1198.5 73.3 5 K.SWGSPTITKDGVTVAK.E
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_06.08631.08631.2 2.5536 0.1194 1166.6727 1164.3678 4460.4 6 699 77.8 1 K.FQNLGAQMVR.E
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25422.25422.2 3.6846 0.5519 2094.0518 2096.3018 5841.8 1 1462.4 70 2 K.TSDVAGDGTTTATVLAQAIFR.E
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25396.25396.3 3.7222 0.4465 2095.061 2096.3018 6365.6 1 1294.9 40 1 K.TSDVAGDGTTTATVLAQAIFR.E
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eDeep20120820:eD1_3396_1 5 39 45.0% 60 6451 9.7 U TGroEL # pI:9.70 MW:6451
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15191.15191.2 3.9035 0.3526 1595.925 1596.9138 3878.5 1 714 75 8 R.QAILRGVNKLADAVK.V
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.06178.06178.2 2.7941 0.1306 1014.557 1015.1979 4939.8 34 589.9 72.2 1 R.GVNKLADAVK.V
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.06181.06181.1 1.822 0.2189 1014.56 1015.1979 5053.4 16 231.5 50 1 R.GVNKLADAVK.V
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_08.17534.17534.2 4.7474 0.1538 1609.929 1610.9377 5966.2 1 1537.9 76.7 28 R.GVNKLADAVKVTLGPK.G
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2 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.03309.03309.1 2.2351 0.0941 701.4238 701.8412 3692.5 1 411.8 80 1 R.NVVLEK.K
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eDeep20120820:eD1_1494_8 6 11 15.7% 509 54101 5 U chaperonin GroEL # pI:4.93 MW:54101
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.16001.16001.2 2.8934 0.2246 1529.7815 1530.7393 4669.8 1 694.8 69.2 2 R.ALENGMNQLVDAVR.V
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2 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.03309.03309.1 2.2351 0.0941 701.4238 701.8412 3692.5 1 411.8 80 1 R.NVVLEK.K
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* 20120806_Erio_Deep_Aug2010_27Jun_TR1_11.06538.06538.2 3.0105 0.2342 1329.7216 1329.5602 6743.4 1 1215.2 83.3 2 R.NVAAGANPMSLKR.G
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*2 20120806_Erio_Deep_Aug2010_27Jun_TR1_02.06882.06882.2 2.7628 0.2128 843.5307 844.0421 3147.4 4 438.8 75 2 K.LSGGVAVIK.V
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20120806_Erio_Deep_Aug2010_27Jun_TR1_02.17582.17582.2 5.0532 0.1294 1607.9104 1608.8784 3425.9 1 1120.6 81.2 3 K.AAIEEGVVPGGGVALLR.A
|
|
88
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.13997.13997.2 4.9125 0.4921 2202.0728 2202.3396 9216.2 1 2282.2 67.5 1 R.AQQAILDAAEKLDDDEATGAR.I
|
|
89
|
+
Proteins Peptide IDs Copies
|
|
90
|
+
Unfiltered 93036 400116 424912
|
|
91
|
+
Redundant 390 1292 6998
|
|
92
|
+
Nonredundant 371 1094 5575
|
|
93
|
+
|
|
94
|
+
Classification Nonredundant Proteins Redundant Proteins
|
|
95
|
+
Unclassified 0 0
|
|
@@ -0,0 +1,52 @@
|
|
|
1
|
+
DTASelect v1.9
|
|
2
|
+
/auto/gtl/ms/Abisko_Soils/Field_Sampling_Aug_2010/SurfDeep/Erio_Deep_Aug2010_27Jun_TR1/Frac1/analysis/tryp_edeep_20120820_Mstor4.3.2/sequest
|
|
3
|
+
/auto/gtl/db/Abisko_Soils/edeep_20120820_Mstor4.3.2_cntm_psm
|
|
4
|
+
SEQUEST v.27 in SQT format.
|
|
5
|
+
--DB -p 2 -r 1000
|
|
6
|
+
true Use criteria
|
|
7
|
+
1.8 Minimum +1 XCorr
|
|
8
|
+
2.5 Minimum +2 XCorr
|
|
9
|
+
3.5 Minimum +3 XCorr
|
|
10
|
+
0.08 Minimum DeltCN
|
|
11
|
+
1 Minimum charge state
|
|
12
|
+
3 Maximum charge state
|
|
13
|
+
0 Minimum ion proportion
|
|
14
|
+
1000 Maximum Sp rank
|
|
15
|
+
-1 Minimum Sp score
|
|
16
|
+
Include Modified peptide inclusion
|
|
17
|
+
Any Tryptic status requirement
|
|
18
|
+
true Multiple, ambiguous IDs allowed
|
|
19
|
+
Ignore Peptide validation handling
|
|
20
|
+
XCorr Purge duplicate peptides by protein
|
|
21
|
+
false Include only loci with unique peptide
|
|
22
|
+
false Remove subset proteins
|
|
23
|
+
Ignore Locus validation handling
|
|
24
|
+
0 Minimum modified peptides per locus
|
|
25
|
+
1000 Minimum redundancy for low coverage loci
|
|
26
|
+
2 Minimum peptides per locus
|
|
27
|
+
|
|
28
|
+
Locus Sequence Count Spectrum Count Sequence Coverage Length MolWt pI Validation Status Descriptive Name
|
|
29
|
+
Unique FileName XCorr DeltCN M+H+ CalcM+H+ TotalIntensity SpRank SpScore IonProportion Redundancy Sequence
|
|
30
|
+
Mstor_v4.3.2:1344 15 188 58.6% 249 27617 8.7 U Methanoflorens_stordalmirensis_v4.3.2_01361 Methyl-coenzyme M reductase I subunit gamma
|
|
31
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
32
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
33
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05321.05321.1 1.8605 0.2699 822.3913 822.9573 3293.9 1 262 75 2 R.SWMAATR.F
|
|
34
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
35
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
36
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15208.15208.2 4.339 0.4065 1384.6218 1385.5929 6844.7 1 2135.8 90.9 35 K.MLLESEAFDCAR.S
|
|
37
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
38
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
39
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
40
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
41
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
42
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
43
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
44
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
45
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
46
|
+
Proteins Peptide IDs Copies
|
|
47
|
+
Unfiltered 93036 400116 424912
|
|
48
|
+
Redundant 390 1292 6998
|
|
49
|
+
Nonredundant 371 1094 5575
|
|
50
|
+
|
|
51
|
+
Classification Nonredundant Proteins Redundant Proteins
|
|
52
|
+
Unclassified 0 0
|
|
@@ -0,0 +1,53 @@
|
|
|
1
|
+
DTASelect v1.9
|
|
2
|
+
/auto/gtl/ms/Abisko_Soils/Field_Sampling_Aug_2010/SurfDeep/Erio_Deep_Aug2010_27Jun_TR1/Frac1/analysis/tryp_edeep_20120820_Mstor4.3.2/sequest
|
|
3
|
+
/auto/gtl/db/Abisko_Soils/edeep_20120820_Mstor4.3.2_cntm_psm
|
|
4
|
+
SEQUEST v.27 in SQT format.
|
|
5
|
+
--DB -p 2 -r 1000
|
|
6
|
+
true Use criteria
|
|
7
|
+
1.8 Minimum +1 XCorr
|
|
8
|
+
2.5 Minimum +2 XCorr
|
|
9
|
+
3.5 Minimum +3 XCorr
|
|
10
|
+
0.08 Minimum DeltCN
|
|
11
|
+
1 Minimum charge state
|
|
12
|
+
3 Maximum charge state
|
|
13
|
+
0 Minimum ion proportion
|
|
14
|
+
1000 Maximum Sp rank
|
|
15
|
+
-1 Minimum Sp score
|
|
16
|
+
Include Modified peptide inclusion
|
|
17
|
+
Any Tryptic status requirement
|
|
18
|
+
true Multiple, ambiguous IDs allowed
|
|
19
|
+
Ignore Peptide validation handling
|
|
20
|
+
XCorr Purge duplicate peptides by protein
|
|
21
|
+
false Include only loci with unique peptide
|
|
22
|
+
false Remove subset proteins
|
|
23
|
+
Ignore Locus validation handling
|
|
24
|
+
0 Minimum modified peptides per locus
|
|
25
|
+
1000 Minimum redundancy for low coverage loci
|
|
26
|
+
2 Minimum peptides per locus
|
|
27
|
+
|
|
28
|
+
Locus Sequence Count Spectrum Count Sequence Coverage Length MolWt pI Validation Status Descriptive Name
|
|
29
|
+
Unique FileName XCorr DeltCN M+H+ CalcM+H+ TotalIntensity SpRank SpScore IonProportion Redundancy Sequence
|
|
30
|
+
Mstor_v4.3.2:1344 15 188 58.6% 249 27617 8.7 U Methanoflorens_stordalmirensis_v4.3.2_01361 Methyl-coenzyme M reductase I subunit gamma
|
|
31
|
+
alias1 15 188 58.6% 249 27617 8.7 U alias1 Methyl-coenzyme M reductase I subunit gamma
|
|
32
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
33
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
34
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05321.05321.1 1.8605 0.2699 822.3913 822.9573 3293.9 1 262 75 2 R.SWMAATR.F
|
|
35
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
36
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
37
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15208.15208.2 4.339 0.4065 1384.6218 1385.5929 6844.7 1 2135.8 90.9 35 K.MLLESEAFDCAR.S
|
|
38
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
39
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
40
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
41
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
42
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
43
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
44
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
45
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
46
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
47
|
+
Proteins Peptide IDs Copies
|
|
48
|
+
Unfiltered 93036 400116 424912
|
|
49
|
+
Redundant 390 1292 6998
|
|
50
|
+
Nonredundant 371 1094 5575
|
|
51
|
+
|
|
52
|
+
Classification Nonredundant Proteins Redundant Proteins
|
|
53
|
+
Unclassified 0 0
|
|
@@ -0,0 +1,76 @@
|
|
|
1
|
+
DTASelect v1.9
|
|
2
|
+
/auto/gtl/ms/Abisko_Soils/Field_Sampling_Aug_2010/SurfDeep/Erio_Deep_Aug2010_27Jun_TR1/Frac1/analysis/tryp_edeep_20120820_Mstor4.3.2/sequest
|
|
3
|
+
/auto/gtl/db/Abisko_Soils/edeep_20120820_Mstor4.3.2_cntm_psm
|
|
4
|
+
SEQUEST v.27 in SQT format.
|
|
5
|
+
--DB -p 2 -r 1000
|
|
6
|
+
true Use criteria
|
|
7
|
+
1.8 Minimum +1 XCorr
|
|
8
|
+
2.5 Minimum +2 XCorr
|
|
9
|
+
3.5 Minimum +3 XCorr
|
|
10
|
+
0.08 Minimum DeltCN
|
|
11
|
+
1 Minimum charge state
|
|
12
|
+
3 Maximum charge state
|
|
13
|
+
0 Minimum ion proportion
|
|
14
|
+
1000 Maximum Sp rank
|
|
15
|
+
-1 Minimum Sp score
|
|
16
|
+
Include Modified peptide inclusion
|
|
17
|
+
Any Tryptic status requirement
|
|
18
|
+
true Multiple, ambiguous IDs allowed
|
|
19
|
+
Ignore Peptide validation handling
|
|
20
|
+
XCorr Purge duplicate peptides by protein
|
|
21
|
+
false Include only loci with unique peptide
|
|
22
|
+
false Remove subset proteins
|
|
23
|
+
Ignore Locus validation handling
|
|
24
|
+
0 Minimum modified peptides per locus
|
|
25
|
+
1000 Minimum redundancy for low coverage loci
|
|
26
|
+
2 Minimum peptides per locus
|
|
27
|
+
|
|
28
|
+
Locus Sequence Count Spectrum Count Sequence Coverage Length MolWt pI Validation Status Descriptive Name
|
|
29
|
+
Unique FileName XCorr DeltCN M+H+ CalcM+H+ TotalIntensity SpRank SpScore IonProportion Redundancy Sequence
|
|
30
|
+
Mstor_v4.3.2:1344 15 188 58.6% 249 27617 8.7 U Methanoflorens_stordalmirensis_v4.3.2_01361 Methyl-coenzyme M reductase I subunit gamma
|
|
31
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
32
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
33
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05321.05321.1 1.8605 0.2699 822.3913 822.9573 3293.9 1 262 75 2 R.SWMAATR.F
|
|
34
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
35
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
36
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15208.15208.2 4.339 0.4065 1384.6218 1385.5929 6844.7 1 2135.8 90.9 35 K.MLLESEAFDCAR.S
|
|
37
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
38
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
39
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
40
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
41
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
42
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
43
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
44
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
45
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
46
|
+
eDeep20120820:eD1_8237_2 16 220 57.4% 249 27683 8.9 U methyl-coenzyme M reductase gamma subunit # pI:8.94 MW:27683
|
|
47
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
48
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
49
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
50
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
51
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.14095.14095.2 4.8369 0.5277 1378.6663 1379.5707 9283.7 1 2692.6 90.9 56 K.MLLESEAFDPAR.S
|
|
52
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.13949.13949.1 2.4766 0.354 1380.67 1379.5707 4485.8 1 506.7 68.2 4 K.MLLESEAFDPAR.S
|
|
53
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_04.14749.14749.2 3.3302 0.2608 1777.8914 1779.0209 3944.1 8 231.6 46.7 9 K.MLLESEAFDPARSGVR.G
|
|
54
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
55
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
56
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
57
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
58
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
59
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
60
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
61
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
62
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
63
|
+
eDeep20120820:eD1_1639_1 6 47 54.6% 97 10181 9.2 U chaperonin GroEL # pI:9.22 MW:10181
|
|
64
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.14607.14607.2 3.3369 0.4724 1576.8171 1577.8976 6120.3 1 1543.2 82.1 3 K.MANLGAQMVKEVASK.T
|
|
65
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.24627.24627.3 3.69 0.2962 2983.4954 2982.231 9369.6 1 1286.9 28.4 1 K.EVASKTSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
66
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25402.25402.3 6.2951 0.4542 2466.2097 2467.6519 9066.5 1 4083.4 49 12 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
67
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25380.25380.2 5.5921 0.5669 2466.2104 2467.6519 7538.4 1 2687 64.6 4 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
68
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_02.08539.08539.2 3.2291 0.3305 1215.6385 1216.4381 4640.6 1 1013.9 77.3 4 R.LVAAGSNPMDIK.R
|
|
69
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.07029.07029.2 3.8934 0.3124 1371.7393 1372.6256 5850.5 1 1132.1 83.3 23 R.LVAAGSNPMDIKR.G
|
|
70
|
+
Proteins Peptide IDs Copies
|
|
71
|
+
Unfiltered 93036 400116 424912
|
|
72
|
+
Redundant 390 1292 6998
|
|
73
|
+
Nonredundant 371 1094 5575
|
|
74
|
+
|
|
75
|
+
Classification Nonredundant Proteins Redundant Proteins
|
|
76
|
+
Unclassified 0 0
|
|
@@ -0,0 +1,81 @@
|
|
|
1
|
+
DTASelect v1.9
|
|
2
|
+
/auto/gtl/ms/Abisko_Soils/Field_Sampling_Aug_2010/SurfDeep/Erio_Deep_Aug2010_27Jun_TR1/Frac1/analysis/tryp_edeep_20120820_Mstor4.3.2/sequest
|
|
3
|
+
/auto/gtl/db/Abisko_Soils/edeep_20120820_Mstor4.3.2_cntm_psm
|
|
4
|
+
SEQUEST v.27 in SQT format.
|
|
5
|
+
--DB -p 2 -r 1000
|
|
6
|
+
true Use criteria
|
|
7
|
+
1.8 Minimum +1 XCorr
|
|
8
|
+
2.5 Minimum +2 XCorr
|
|
9
|
+
3.5 Minimum +3 XCorr
|
|
10
|
+
0.08 Minimum DeltCN
|
|
11
|
+
1 Minimum charge state
|
|
12
|
+
3 Maximum charge state
|
|
13
|
+
0 Minimum ion proportion
|
|
14
|
+
1000 Maximum Sp rank
|
|
15
|
+
-1 Minimum Sp score
|
|
16
|
+
Include Modified peptide inclusion
|
|
17
|
+
Any Tryptic status requirement
|
|
18
|
+
true Multiple, ambiguous IDs allowed
|
|
19
|
+
Ignore Peptide validation handling
|
|
20
|
+
XCorr Purge duplicate peptides by protein
|
|
21
|
+
false Include only loci with unique peptide
|
|
22
|
+
false Remove subset proteins
|
|
23
|
+
Ignore Locus validation handling
|
|
24
|
+
0 Minimum modified peptides per locus
|
|
25
|
+
1000 Minimum redundancy for low coverage loci
|
|
26
|
+
2 Minimum peptides per locus
|
|
27
|
+
|
|
28
|
+
Locus Sequence Count Spectrum Count Sequence Coverage Length MolWt pI Validation Status Descriptive Name
|
|
29
|
+
Unique FileName XCorr DeltCN M+H+ CalcM+H+ TotalIntensity SpRank SpScore IonProportion Redundancy Sequence
|
|
30
|
+
Mstor_v4.3.2:1344 15 188 58.6% 249 27617 8.7 U Methanoflorens_stordalmirensis_v4.3.2_01361 Methyl-coenzyme M reductase I subunit gamma
|
|
31
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
32
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
33
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05321.05321.1 1.8605 0.2699 822.3913 822.9573 3293.9 1 262 75 2 R.SWMAATR.F
|
|
34
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
35
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
36
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15208.15208.2 4.339 0.4065 1384.6218 1385.5929 6844.7 1 2135.8 90.9 35 K.MLLESEAFDCAR.S
|
|
37
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
38
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
39
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
40
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
41
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
42
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
43
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
44
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
45
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
46
|
+
eDeep20120820:eD1_8237_2 16 220 57.4% 249 27683 8.9 U methyl-coenzyme M reductase gamma subunit # pI:8.94 MW:27683
|
|
47
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
48
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
49
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
50
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
51
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.14095.14095.2 4.8369 0.5277 1378.6663 1379.5707 9283.7 1 2692.6 90.9 56 K.MLLESEAFDPAR.S
|
|
52
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.13949.13949.1 2.4766 0.354 1380.67 1379.5707 4485.8 1 506.7 68.2 4 K.MLLESEAFDPAR.S
|
|
53
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_04.14749.14749.2 3.3302 0.2608 1777.8914 1779.0209 3944.1 8 231.6 46.7 9 K.MLLESEAFDPARSGVR.G
|
|
54
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
55
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
56
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
57
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
58
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
59
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
60
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
61
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
62
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
63
|
+
eDeep20120820:eD1_1639_1 6 47 54.6% 97 10181 9.2 U chaperonin GroEL # pI:9.22 MW:10181
|
|
64
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.14607.14607.2 3.3369 0.4724 1576.8171 1577.8976 6120.3 1 1543.2 82.1 3 K.MANLGAQMVKEVASK.T
|
|
65
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25402.25402.3 6.2951 0.4542 2466.2097 2467.6519 9066.5 1 4083.4 49 12 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
66
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25380.25380.2 5.5921 0.5669 2466.2104 2467.6519 7538.4 1 2687 64.6 4 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
67
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_02.08539.08539.2 3.2291 0.3305 1215.6385 1216.4381 4640.6 1 1013.9 77.3 4 R.LVAAGSNPMDIK.R
|
|
68
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_07.07029.07029.2 3.8934 0.3124 1371.7393 1372.6256 5850.5 1 1132.1 83.3 23 R.LVAAGSNPMDIKR.G
|
|
69
|
+
eDeep20120820:eD1_1639_1_merge 6 47 54.6% 97 10181 9.2 U chaperonin GroEL # pI:9.22 MW:10181
|
|
70
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.24627.24627.3 3.69 0.2962 2983.4954 2982.231 9369.6 1 1286.9 28.4 1 K.EVASKTSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
71
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25402.25402.3 6.2951 0.4542 2466.2097 2467.6519 9066.5 1 4083.4 49 12 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
72
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25380.25380.2 5.5921 0.5669 2466.2104 2467.6519 7538.4 1 2687 64.6 4 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
73
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_02.08539.08539.2 3.2291 0.3305 1215.6385 1216.4381 4640.6 1 1013.9 77.3 4 R.LVAAGSNPMDIK.R
|
|
74
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_07.07029.07029.2 3.8934 0.3124 1371.7393 1372.6256 5850.5 1 1132.1 83.3 23 R.LVAAGSNPMDIKR.G
|
|
75
|
+
Proteins Peptide IDs Copies
|
|
76
|
+
Unfiltered 93036 400116 424912
|
|
77
|
+
Redundant 390 1292 6998
|
|
78
|
+
Nonredundant 371 1094 5575
|
|
79
|
+
|
|
80
|
+
Classification Nonredundant Proteins Redundant Proteins
|
|
81
|
+
Unclassified 0 0
|
|
@@ -0,0 +1,87 @@
|
|
|
1
|
+
DTASelect v1.9
|
|
2
|
+
/auto/gtl/ms/Abisko_Soils/Field_Sampling_Aug_2010/SurfDeep/Erio_Deep_Aug2010_27Jun_TR1/Frac1/analysis/tryp_edeep_20120820_Mstor4.3.2/sequest
|
|
3
|
+
/auto/gtl/db/Abisko_Soils/edeep_20120820_Mstor4.3.2_cntm_psm
|
|
4
|
+
SEQUEST v.27 in SQT format.
|
|
5
|
+
--DB -p 2 -r 1000
|
|
6
|
+
true Use criteria
|
|
7
|
+
1.8 Minimum +1 XCorr
|
|
8
|
+
2.5 Minimum +2 XCorr
|
|
9
|
+
3.5 Minimum +3 XCorr
|
|
10
|
+
0.08 Minimum DeltCN
|
|
11
|
+
1 Minimum charge state
|
|
12
|
+
3 Maximum charge state
|
|
13
|
+
0 Minimum ion proportion
|
|
14
|
+
1000 Maximum Sp rank
|
|
15
|
+
-1 Minimum Sp score
|
|
16
|
+
Include Modified peptide inclusion
|
|
17
|
+
Any Tryptic status requirement
|
|
18
|
+
true Multiple, ambiguous IDs allowed
|
|
19
|
+
Ignore Peptide validation handling
|
|
20
|
+
XCorr Purge duplicate peptides by protein
|
|
21
|
+
false Include only loci with unique peptide
|
|
22
|
+
false Remove subset proteins
|
|
23
|
+
Ignore Locus validation handling
|
|
24
|
+
0 Minimum modified peptides per locus
|
|
25
|
+
1000 Minimum redundancy for low coverage loci
|
|
26
|
+
2 Minimum peptides per locus
|
|
27
|
+
|
|
28
|
+
Locus Sequence Count Spectrum Count Sequence Coverage Length MolWt pI Validation Status Descriptive Name
|
|
29
|
+
Unique FileName XCorr DeltCN M+H+ CalcM+H+ TotalIntensity SpRank SpScore IonProportion Redundancy Sequence
|
|
30
|
+
Mstor_v4.3.2:1344 15 188 58.6% 249 27617 8.7 U Methanoflorens_stordalmirensis_v4.3.2_01361 Methyl-coenzyme M reductase I subunit gamma
|
|
31
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
32
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
33
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05321.05321.1 1.8605 0.2699 822.3913 822.9573 3293.9 1 262 75 2 R.SWMAATR.F
|
|
34
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
35
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
36
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15208.15208.2 4.339 0.4065 1384.6218 1385.5929 6844.7 1 2135.8 90.9 35 K.MLLESEAFDCAR.S
|
|
37
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
38
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
39
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
40
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
41
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
42
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
43
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
44
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
45
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
46
|
+
eDeep20120820:eD1_8237_2 16 220 57.4% 249 27683 8.9 U methyl-coenzyme M reductase gamma subunit # pI:8.94 MW:27683
|
|
47
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.15707.15707.2 3.5762 0.446 1510.7458 1511.6317 5362.4 1 1603.6 80.8 3 R.DVSDDDVVAILGHR.T
|
|
48
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.25883.25883.2 3.5106 0.4492 2228.0544 2229.6162 7158.3 1 1635 70.6 7 R.YIQFTDSMYFAPMVPYVR.S
|
|
49
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08549.08549.2 2.9469 0.2237 1261.665 1262.4111 2571.6 46 401.4 72.7 11 R.FRGVDPGTLSGR.Q
|
|
50
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_11.08730.08730.1 2.0886 0.0945 1261.67 1262.4111 3742.9 146 186.7 50 1 R.FRGVDPGTLSGR.Q
|
|
51
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.14095.14095.2 4.8369 0.5277 1378.6663 1379.5707 9283.7 1 2692.6 90.9 56 K.MLLESEAFDPAR.S
|
|
52
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.13949.13949.1 2.4766 0.354 1380.67 1379.5707 4485.8 1 506.7 68.2 4 K.MLLESEAFDPAR.S
|
|
53
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_04.14749.14749.2 3.3302 0.2608 1777.8914 1779.0209 3944.1 8 231.6 46.7 9 K.MLLESEAFDPARSGVR.G
|
|
54
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.19243.19243.2 4.2447 0.3674 1598.7095 1599.8782 7245.7 1 2066.9 87.5 33 R.LDQNGMMFDMLQR.S
|
|
55
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_01.07956.07956.2 2.6958 0.2148 1332.6833 1333.5426 3808.3 16 374.6 58.3 1 R.SVMNPDGSVSIVK.D
|
|
56
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_06.14773.14773.2 3.112 0.3203 2342.1726 2342.6726 5764 1 382.6 42.9 1 R.SVMNPDGSVSIVKDQVGRPLDK.A
|
|
57
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_05.05981.05981.2 2.9718 0.2878 1427.757 1428.6868 3080.4 18 181.1 50 9 K.AVPVGKPMSDADLK.S
|
|
58
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_10.08906.08906.2 3.2632 0.4873 1670.892 1671.9525 4077.5 1 424.4 60 29 K.AVPVGKPMSDADLKSR.T
|
|
59
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_04.05034.05034.2 2.8362 0.2929 1351.6948 1352.4899 5816.8 2 726.7 68.2 2 R.TTIYRVDGEAAR.A
|
|
60
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_03.09554.09554.2 2.9228 0.3238 1348.7126 1350.5577 7089.2 1 1274.9 80 4 R.ADKELITYIQR.I
|
|
61
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15826.15826.1 2.845 0.4043 1068.4993 1069.3247 6481.2 1 666.4 68.8 21 R.TMWGFKPMA.-
|
|
62
|
+
20120806_Erio_Deep_Aug2010_27Jun_TR1_09.15823.15823.2 3.0173 0.4838 1068.5002 1069.3247 3787.7 1 611.6 81.2 29 R.TMWGFKPMA.-
|
|
63
|
+
eDeep20120820:eD1_1639_1 6 47 54.6% 97 10181 9.2 U chaperonin GroEL # pI:9.22 MW:10181
|
|
64
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.14607.14607.2 3.3369 0.4724 1576.8171 1577.8976 6120.3 1 1543.2 82.1 3 K.MANLGAQMVKEVASK.T
|
|
65
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.24627.24627.3 3.69 0.2962 2983.4954 2982.231 9369.6 1 1286.9 28.4 1 K.EVASKTSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
66
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25402.25402.3 6.2951 0.4542 2466.2097 2467.6519 9066.5 1 4083.4 49 12 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
67
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_01.25380.25380.2 5.5921 0.5669 2466.2104 2467.6519 7538.4 1 2687 64.6 4 K.TSDVAGDGTTTATVLAQAIFNEGAR.L
|
|
68
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_02.08539.08539.2 3.2291 0.3305 1215.6385 1216.4381 4640.6 1 1013.9 77.3 4 R.LVAAGSNPMDIK.R
|
|
69
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_07.07029.07029.2 3.8934 0.3124 1371.7393 1372.6256 5850.5 1 1132.1 83.3 23 R.LVAAGSNPMDIKR.G
|
|
70
|
+
CNTM:cont_gi|136429|sp|P00761|TRYP_PIG 10 210 44.6% 231 24409 7.2 U Trypsin precursor # pI:7.00 MW:24410
|
|
71
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_03.15788.15788.2 6.3802 0.5172 2211.1033 2212.424 9002.7 1 3192.2 73.7 43 R.LGEHNIDVLEGNEQFINAAK.I
|
|
72
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_03.15785.15785.3 5.4827 0.3178 2211.104 2212.424 10085.5 1 3737.6 52.6 55 R.LGEHNIDVLEGNEQFINAAK.I
|
|
73
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_09.20588.20588.2 4.8449 0.5284 2283.179 2284.6355 6939.1 1 1631.2 68.4 34 K.IITHPNFNGNTLDNDIMLIK.L
|
|
74
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_09.20736.20736.3 4.4596 0.44 2283.1816 2284.6355 6362.4 1 1148.3 42.1 20 K.IITHPNFNGNTLDNDIMLIK.L
|
|
75
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_05.04620.04620.2 2.6144 0.1022 1044.6127 1046.1686 4628.1 8 508.9 77.8 3 K.LSSPATLNSR.V
|
|
76
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_04.04664.04664.1 2.0106 0.2221 1045.5754 1046.1686 3026.9 18 94.7 50.0 1 K.LSSPATLNSR.V
|
|
77
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_02.16990.16990.2 5.4854 0.5196 1768.7935 1769.985 8295.1 1 2033.6 73.5 48 R.SCAAAGTECLISGWGNTK.S
|
|
78
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_02.17030.17030.3 4.1712 0.2918 1768.7979 1769.985 6647.8 1 1714.8 50.0 3 R.SCAAAGTECLISGWGNTK.S
|
|
79
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_03.19619.19619.2 2.6002 0.3195 1469.7275 1470.6807 3790.9 1 442.0 57.7 1 K.SSGSSYPSLLQCLK.A
|
|
80
|
+
* 20120806_Erio_Deep_Aug2010_27Jun_TR1_04.24767.24767.2 3.1648 0.3948 2158.0327 2159.48 4872.7 1 642.6 55.0 2 K.SSYPGQITGNMICVGFLEGGK.D
|
|
81
|
+
Proteins Peptide IDs Copies
|
|
82
|
+
Unfiltered 93036 400116 424912
|
|
83
|
+
Redundant 390 1292 6998
|
|
84
|
+
Nonredundant 371 1094 5575
|
|
85
|
+
|
|
86
|
+
Classification Nonredundant Proteins Redundant Proteins
|
|
87
|
+
Unclassified 0 0
|