---
Predicted Sensitivity and Error Rate
ACCURATEMASSMODEL

Model Results for Charge +2    
+2 ISOMASSDIFF distributions
+2 NMC distributions
+2 NTT distributions
+2 Sens/Error Rates

Model Results for Charge +3    
+3 ISOMASSDIFF distributions
+3 NMC distributions
+3 NTT distributions
+3 Sens/Error Rates

Model Results for Charge +4    
+4 ISOMASSDIFF distributions
+4 NMC distributions
+4 NTT distributions
+4 Sens/Error Rates

Model Results for Charge +5    
+5 ISOMASSDIFF distributions
+5 NMC distributions
+5 NTT distributions
+5 Sens/Error Rates

+1 Models
commentsusing training data negative distributions
est_tot_correct0.0
num_iterations21
prior_probability0.000
tot_num_spectra0
Comet discrim score [fval] negmean: 1.00
pos modelgaussian (mean 2.00, stdev 0.40)
neg modelgaussian (mean 0.00, stdev 3.16)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.333, ntt=1 0.333, ntt=2 0.333)
neg model (ntt=0 0.333, ntt=1 0.333, ntt=2 0.333)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.333, 1<=nmc<=2 0.333, nmc>=3 0.333)
neg model (nmc=0 0.333, 1<=nmc<=2 0.333, nmc>=3 0.333)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.143, -2 0.143, -1 0.143, 0 0.143, 1 0.143, 2 0.143, 3 0.143)
neg model (-3 0.143, -2 0.143, -1 0.143, 0 0.143, 1 0.143, 2 0.143, 3 0.143)
+2 Models
commentsusing no. tolerable trypsin term. [ntt] 0 data as pseudonegatives
est_tot_correct23122.7
num_iterations27
prior_probability0.673
tot_num_spectra44720
Comet discrim score [fval] negmean: -2.01
pos modelgaussian (mean 2.94, stdev 2.11)
neg modelgaussian (mean -0.94, stdev 1.07)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.000, ntt=1 0.000, ntt=2 1.000)
neg model (ntt=0 0.000, ntt=1 0.023, ntt=2 0.976)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.941, 1<=nmc<=2 0.059, nmc>=3 0.000)
neg model (nmc=0 0.482, 1<=nmc<=2 0.516, nmc>=3 0.003)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.000, -2 0.000, -1 0.028, 0 0.859, 1 0.102, 2 0.010, 3 0.000)
neg model (-3 0.000, -2 0.000, -1 0.305, 0 0.320, 1 0.166, 2 0.112, 3 0.097)
+3 Models
commentsusing no. tolerable trypsin term. [ntt] 0 data as pseudonegatives
est_tot_correct15195.6
num_iterations27
prior_probability0.578
tot_num_spectra36857
Comet discrim score [fval] negmean: -1.60
pos modelgaussian (mean 4.10, stdev 2.48)
neg modelgaussian (mean -0.52, stdev 1.08)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.000, ntt=1 0.000, ntt=2 1.000)
neg model (ntt=0 0.000, ntt=1 0.021, ntt=2 0.979)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.827, 1<=nmc<=2 0.173, nmc>=3 0.000)
neg model (nmc=0 0.282, 1<=nmc<=2 0.710, nmc>=3 0.008)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.000, -2 0.000, -1 0.023, 0 0.774, 1 0.151, 2 0.045, 3 0.006)
neg model (-3 0.000, -2 0.000, -1 0.237, 0 0.224, 1 0.200, 2 0.174, 3 0.166)
+4 Models
commentsusing no. tolerable trypsin term. [ntt] 0 data as pseudonegatives
est_tot_correct2971.1
num_iterations26
prior_probability0.502
tot_num_spectra8743
Comet discrim score [fval] negmean: -2.03
pos modelgaussian (mean 1.90, stdev 1.57)
neg modelgaussian (mean -1.25, stdev 0.78)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.000, ntt=1 0.000, ntt=2 1.000)
neg model (ntt=0 0.000, ntt=1 0.022, ntt=2 0.978)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.672, 1<=nmc<=2 0.328, nmc>=3 0.000)
neg model (nmc=0 0.178, 1<=nmc<=2 0.803, nmc>=3 0.019)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.000, -2 0.000, -1 0.018, 0 0.777, 1 0.160, 2 0.037, 3 0.008)
neg model (-3 0.000, -2 0.000, -1 0.231, 0 0.215, 1 0.199, 2 0.179, 3 0.176)
+5 Models
commentsusing no. tolerable trypsin term. [ntt] 0 data as pseudonegatives
est_tot_correct349.0
num_iterations26
prior_probability0.326
tot_num_spectra1788
Comet discrim score [fval] negmean: -2.89
pos modelgaussian (mean 1.80, stdev 1.54)
neg modelgaussian (mean -1.74, stdev 1.15)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.000, ntt=1 0.000, ntt=2 1.000)
neg model (ntt=0 0.000, ntt=1 0.028, ntt=2 0.972)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.560, 1<=nmc<=2 0.440, nmc>=3 0.000)
neg model (nmc=0 0.153, 1<=nmc<=2 0.827, nmc>=3 0.020)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.000, -2 0.000, -1 0.004, 0 0.876, 1 0.110, 2 0.008, 3 0.001)
neg model (-3 0.000, -2 0.000, -1 0.208, 0 0.198, 1 0.199, 2 0.201, 3 0.194)
+6 Models
commentsusing training data negative distributions
est_tot_correct0.0
num_iterations21
prior_probability0.000
tot_num_spectra0
Comet discrim score [fval] negmean: -5.00
pos modelgaussian (mean 4.56, stdev 1.24)
neg modelgaussian (mean 0.00, stdev 3.16)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.333, ntt=1 0.333, ntt=2 0.333)
neg model (ntt=0 0.333, ntt=1 0.333, ntt=2 0.333)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.333, 1<=nmc<=2 0.333, nmc>=3 0.333)
neg model (nmc=0 0.333, 1<=nmc<=2 0.333, nmc>=3 0.333)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.143, -2 0.143, -1 0.143, 0 0.143, 1 0.143, 2 0.143, 3 0.143)
neg model (-3 0.143, -2 0.143, -1 0.143, 0 0.143, 1 0.143, 2 0.143, 3 0.143)
+7 Models
commentsusing training data negative distributions
est_tot_correct0.0
num_iterations21
prior_probability0.000
tot_num_spectra0
Comet discrim score [fval] negmean: -5.00
pos modelgaussian (mean 4.56, stdev 1.24)
neg modelgaussian (mean 0.00, stdev 3.16)
no. tolerable trypsin term. [ntt]
pos model (ntt=0 0.333, ntt=1 0.333, ntt=2 0.333)
neg model (ntt=0 0.333, ntt=1 0.333, ntt=2 0.333)
no. missed enz. cleavages [nmc]
pos model (nmc=0 0.333, 1<=nmc<=2 0.333, nmc>=3 0.333)
neg model (nmc=0 0.333, 1<=nmc<=2 0.333, nmc>=3 0.333)
Accurate Mass Model
neg_bandwidth0.010839
pos_bandwidth0.010839
isotopic peak mass difference [IsoMassDiff]
pos model (-3 0.143, -2 0.143, -1 0.143, 0 0.143, 1 0.143, 2 0.143, 3 0.143)
neg model (-3 0.143, -2 0.143, -1 0.143, 0 0.143, 1 0.143, 2 0.143, 3 0.143)

MS run: /home/sean/Documents/proteome/20161205_Sample_11A
msManufacturerThermo
msModelOrbitrap Fusion Lumos
raw_data.mzXML
raw_data_typeraw
sample_enzyme
nametrypsin
specificity cut: KR no_cut: P sense: C
search_summary
base_name/home/sean/Documents/proteome/20161205_Sample_11A
fragment_mass_typemonoisotopic
precursor_mass_typemonoisotopic
search_engineComet
search_engine_version2016.01 rev. 2
search_id1
search_database
local_pathCg-Giga_cont_AA.fa
typeAA
enzymatic_search_constraint
enzymeTrypsin
max_num_internal_cleavages2
min_number_termini2
Aminoacid and Terminal Modifications
M   mass: 147.035385 massdiff: 15.994900 symbol: * variable: Y
C   mass: 160.030649 massdiff: 57.021464 variable: N
Search Parameters
# comet_version 2016.01 rev. 0
activation_methodALL
add_A_alanine0.000000
add_B_user_amino_acid0.000000
add_C_cysteine57.021464
add_Cterm_peptide0.000000
add_Cterm_protein0.000000
add_D_aspartic_acid0.000000
add_E_glutamic_acid0.000000
add_F_phenylalanine0.000000
add_G_glycine0.000000
add_H_histidine0.000000
add_I_isoleucine0.000000
add_J_user_amino_acid0.000000
add_K_lysine0.000000
add_L_leucine0.000000
add_M_methionine0.000000
add_N_asparagine0.000000
add_Nterm_peptide0.000000
add_Nterm_protein0.000000
add_O_ornithine0.000000
add_P_proline0.000000
add_Q_glutamine0.000000
add_R_arginine0.000000
add_S_serine0.000000
add_T_threonine0.000000
add_U_celenocysteinee0.000000
add_V_valine0.000000
add_W_tryptophan0.000000
add_X_user_amino_acid0.000000
add_Y_tyrosine0.000000
add_Z_user_amino_acid0.000000
allowed_missed_cleavage2
clear_mz_range0.000000 0.000000
clip_nterm_methionine0
database_nameCg-Giga_cont_AA.fa
decoy_prefixDECOY_
decoy_search1
digest_mass_range600.000000 5000.000000
fragment_bin_offset0.400000
fragment_bin_tol1.000500
isotope_error1
mass_offsets
mass_type_fragment1
mass_type_parent1
max_fragment_charge3
max_precursor_charge6
max_variable_mods_in_peptide5
minimum_intensity0
minimum_peaks10
ms_level2
nucleotide_reading_frame0
num_enzyme_termini2
num_output_lines5
num_results100
num_threads8
output_outfiles0
output_pepxmlfile1
output_percolatorfile0
output_sqtfile0
output_sqtstream0
output_suffix
output_txtfile0
override_charge0
peptide_mass_tolerance20.000000
peptide_mass_units2
precursor_charge0 0
precursor_tolerance_type1
print_expect_score1
remove_precursor_peak0
remove_precursor_tolerance1.500000
require_variable_mod0
sample_enzyme_number1
scan_range0 0
search_enzyme_number1
show_fragment_ions0
skip_researching1
spectrum_batch_size0
theoretical_fragment_ions1
use_A_ions0
use_B_ions1
use_C_ions0
use_NL_ions0
use_X_ions0
use_Y_ions1
use_Z_ions0
variable_mod0115.994900 M 0 3 -1 0 0
variable_mod020.000000 X 0 3 -1 0 0
variable_mod030.000000 X 0 3 -1 0 0
variable_mod040.000000 X 0 3 -1 0 0
variable_mod050.000000 X 0 3 -1 0 0
variable_mod060.000000 X 0 3 -1 0 0
variable_mod070.000000 X 0 3 -1 0 0
variable_mod080.000000 X 0 3 -1 0 0
variable_mod090.000000 X 0 3 -1 0 0
Analysis Timestamps
peptideprophet2017-02-20T12:37:53 (id: 1)
database_refresh2017-02-20T12:37:41 (id: 1)
databaseCg-Giga_cont_AA.fa
min_num_enz_term0

Predicted Sensitivity and Error Rate
min_probSensitivityError_Ratenum_correctnum_incorrect
0.99990.54330.0000226220
0.99900.62880.0001261842
0.99000.73520.00073061320
0.98000.77080.00133209642
0.95000.82230.003334240115
0.90000.86480.007136010256
0.85000.89250.011137162419
0.80000.91240.015437990594
0.75000.92890.020138676793
0.70000.94320.0253392721020
0.65000.95240.0294396551202
0.60000.95800.0326398921344
0.55000.96280.0359400901491
0.50000.96690.0392402601644
0.45000.97090.0433404261829
0.40000.97460.0478405812038
0.35000.97810.0530407252279
0.30000.98110.0586408522544
0.25000.98410.0656409772875
0.20000.98730.0751411093336
0.15000.99090.0893412574048
0.10000.99400.1073413874974
0.05000.99710.1378415166636
0.00001.00000.54794163850470
+2 only
0.99990.51920.0000120060
0.99900.61060.0001141191
0.99000.73050.00071689113
0.98000.77150.00151783927
0.95000.82720.00361912770
0.90000.87210.007520164153
0.85000.90090.011720832247
0.80000.92100.016021297345
0.75000.93670.020421659450
0.70000.95080.025521985574
0.65000.95970.029422190673
0.60000.96480.032322309745
0.55000.96890.035022402814
0.50000.97230.037922483886
0.45000.97550.041222557969
0.40000.97870.0450226301067
0.35000.98190.0498227031189
0.30000.98420.0541227571300
0.25000.98670.0600228161457
0.20000.98930.0677228741660
0.15000.99200.0790229391967
0.10000.99500.0965230072458
0.05000.99770.1232230693242
0.00001.00000.48292312321597
+3 only
0.99990.58900.000089510
0.99900.66370.0001100851
0.99000.74740.0005113576
0.98000.77490.00101177512
0.95000.82040.00291246636
0.90000.85870.00621304882
0.85000.88480.010213445138
0.80000.90470.014513748202
0.75000.92250.019614018281
0.70000.93720.025014241366
0.65000.94720.029514393437
0.60000.95260.032514476487
0.55000.95780.036014554544
0.50000.96220.039714621604
0.45000.96700.044614694686
0.40000.97100.049614756769
0.35000.97460.054914809860
0.30000.97830.061614865977
0.25000.98180.0698149191119
0.20000.98570.0813149781326
0.15000.99010.0987150451647
0.10000.99320.1158150921976
0.05000.99660.1488151432647
0.00001.00000.58771519621661
+4 only
0.99990.52770.000015680
0.99900.61720.000118340
0.99000.72620.000721581
0.98000.75970.001322573
0.95000.80750.003323998
0.90000.84860.0070252118
0.85000.87400.0108259728
0.80000.89120.0145264839
0.75000.90710.0193269553
0.70000.92070.0244273668
0.65000.92820.0279275879
0.60000.93740.0332278596
0.55000.94540.03872809113
0.50000.95190.04412828131
0.45000.95770.04992846149
0.40000.96380.05742864174
0.35000.96920.06542880201
0.30000.97460.07492896234
0.25000.97790.08232905261
0.20000.98240.09522919307
0.15000.98700.11322933374
0.10000.99130.13602945464
0.05000.99560.17562958630
0.00001.00000.660229715772
+5 only
0.99990.27790.0000970
0.99900.41830.00011460
0.99000.59250.00112070
0.98000.64330.00212250
0.95000.70990.00512481
0.90000.79220.01262764
0.85000.82730.01802895
0.80000.85340.02362987
0.75000.87130.02853049
0.70000.88990.035631111
0.65000.89940.040131413
0.60000.91910.051132117
0.55000.93050.058732520
0.50000.93940.066032823
0.45000.94360.069832925
0.40000.94980.076733128
0.35000.95310.081233329
0.30000.95770.089333433
0.25000.96380.103133639
0.20000.96770.113633843
0.15000.97720.147534159
0.10000.98390.180534376
0.05000.99320.2514347116
0.00001.00000.80483491439
 
Error Table
Error_Ratemin_probnum_correctnum_incorrect
0.00001.000074050
0.00010.9985268013
0.00020.9970281766
0.00030.9954289989
0.00040.99382958512
0.00050.99223004315
0.00060.99073042018
0.00070.98933074522
0.00080.98793103125
0.00090.98633128828
0.00100.98463151632
0.00150.97703240349
0.00200.96993305166
0.00250.96263356684
0.00300.955233990102
0.00400.940034661139
0.00500.925535184177
0.00600.912135617215
0.00700.900735993254
0.00800.887336323293
0.00900.875336618333
0.01000.863536885373
0.01500.804437927578
0.02000.750638667790
0.02500.7022392411007
0.03000.6392397031228
0.04000.4882402941680
0.05000.3789406462140
0.07500.2000411093334
0.10000.1165413414595
+2 only
0.00001.000041090
0.00010.9987143711
0.00020.9973152053
0.00030.9960157155
0.00040.9946160816
0.00050.9932163678
0.00060.99191660510
0.00070.99061680812
0.00080.98921698614
0.00090.98801714715
0.00100.98661729417
0.00150.97981785327
0.00200.97291825737
0.00250.96641857847
0.00300.96001884557
0.00400.94471926277
0.00500.93041957898
0.00600.916919837120
0.00700.905620059142
0.00800.893720258163
0.00900.881920433186
0.01000.869820592208
0.01500.811021205323
0.02000.754221634442
0.02500.703621959563
0.03000.639222217688
0.04000.468722533939
0.05000.3459227071196
0.07500.1657229181860
0.10000.0916230172559
+3 only
0.00001.000027240
0.00010.9982103941
0.00020.9962108032
0.00030.9941110443
0.00040.9919112114
0.00050.9901113416
0.00060.9882114537
0.00070.9865115478
0.00080.9843116309
0.00090.98231170211
0.00100.98031176712
0.00150.97211202618
0.00200.96341221925
0.00250.95511237331
0.00300.94741250338
0.00400.93221271551
0.00500.91671288265
0.00600.90311302179
0.00700.88751314193
0.00800.875713248107
0.00900.865513345121
0.01000.852713432136
0.01500.793413780210
0.02000.745814036287
0.02500.700114241366
0.03000.638714410446
0.04000.495614627610
0.05000.394814761778
0.07500.2228149481213
0.10000.1466150501673
+4 only
0.00001.00005190
0.00010.998618720
0.00020.997119760
0.00030.995520341
0.00040.994020771
0.00050.992721111
0.00060.991021391
0.00070.989121622
0.00080.987821822
0.00090.986122002
0.00100.985022162
0.00150.976822803
0.00200.969223245
0.00250.961023606
0.00300.952723887
0.00400.9358243110
0.00500.9240246613
0.00600.9101249715
0.00700.9005252218
0.00800.8880254521
0.00900.8740256624
0.01000.8621258526
0.01500.7937265441
0.02000.7411270256
0.02500.6877274171
0.03000.6300277086
0.04000.53872815118
0.05000.44702846151
0.07500.29832896236
0.10000.18172923326
+5 only
0.00001.0000590
0.00010.99951370
0.00020.99881560
0.00030.99811690
0.00040.99741790
0.00050.99651860
0.00060.99561920
0.00070.99491960
0.00080.99432000
0.00090.99232040
0.00100.99032070
0.00150.98722170
0.00200.98012250
0.00250.97752301
0.00300.97392351
0.00400.95982431
0.00500.95132491
0.00600.94312532
0.00700.94072582
0.00800.92852632
0.00900.92132663
0.01000.91672693
0.01500.87412844
0.02000.83462946
0.02500.79463018
0.03000.725030710
0.04000.653431513
0.05000.603532117
0.07500.435433128
0.10000.252533639

peptideprophet
time2017-02-20T12:37:53
authorAKeller@ISB
est_tot_num_correct41638.4
min_prob0.90
options DECOY=DECOY_ MINPROB=0.9 ACCMASS
typeunlinked
versionPeptideProphet (TPP v5.0.0 Typhoon, Build 201612091438-exported (Linux-x86_64))
inputfile/home/sean/Documents/proteome/20161205_Sample_11A.pep.xml
database_refresh
time2017-02-20T12:37:41
interact
time2017-02-20T12:37:01
directory/home/sean/Documents/proteome
filename/home/sean/Documents/proteome/interact-20161205_Sample_11A.pep.xml
directory/home/sean/Documents/proteome
inputfile20161205_Sample_11A.pep.xml
tpp_models
timeMon Feb 20 12:40:19 2017




TPP Dashboard
TPP v5.0.0 Typhoon, Build 201612091438-exported (Linux-x86_64)