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Export a peptide list for downstream tools

Source: R/export.R
export_peptide_list.Rd

export_peptide_list() filters a pepVet peptide tibble to valid peptides and returns or writes the result in a format compatible with downstream proteomics tools. Supported formats are "skyline", "generic", and "fasta".

Usage

export_peptide_list(
  peptides,
  format = "skyline",
  charges = 2:3,
  length_range = c(7L, 25L),
  file = NULL
)

Arguments

peptides

A peptide tibble produced by digest_protein() or accessible via evaluate_digest()$peptides. Must contain at minimum the columns protein_id, peptide, and length. If NULL or NA, raises an error.

format

Export format. Defaults to "skyline".

"skyline"

A tibble (or CSV when file is specified) with columns Protein, Peptide Sequence, Precursor Charge, and Precursor Mz. One row per peptide per charge state. M/z values are computed via calculate_peptide_mass().

"generic"

A tibble (or CSV when file is specified) with all pepVet peptide columns plus a computed gravy column and a valid logical column marking peptides that pass length_range.

"fasta"

A character vector (or file when file is specified) of FASTA-formatted records for valid peptides only. Each record has a header of the form >protein_id|peptide_start-end. Requires start and end columns in peptides.

charges

Integer vector of precursor charge states for the "skyline" format. Defaults to 2:3. Ignored for other formats.

length_range

Integer vector of length 2 defining the inclusive valid peptide length window. Defaults to c(7L, 25L).

file

Optional file path. When NULL (default), returns the result. When specified, writes to that path and returns file invisibly. "skyline" and "generic" are written as CSV via utils::write.csv(); "fasta" is written with base::writeLines().

Value

When file = NULL:

  • For "skyline": a tibble with columns Protein, Peptide Sequence, Precursor Charge, and Precursor Mz.

  • For "generic": a tibble with all original columns plus gravy, pI, and valid.

  • For "fasta": a character vector of FASTA records.

When file is specified: file, invisibly.

Details

Precursor m/z for Skyline export is computed as \((M + z \times 1.007276) / z\) where \(M\) is the neutral monoisotopic peptide mass and \(z\) is the charge state. Skyline accepts this format via File > Import > Transition List.

When no peptides pass the length_range filter, skyline format returns an empty tibble and fasta format returns an empty character vector.

Limitations

Only peptides passing the specified length_range are exported.

See also

digest_protein(), evaluate_digest(), calculate_peptide_mass()

Examples

bsa_path <- system.file("extdata", "P02769.fasta", package = "pepVet")
peps <- digest_protein(bsa_path, enzyme = "trypsin")
export_peptide_list(peps, format = "skyline")
#> # A tibble: 216 × 4
#>    Protein                  `Peptide Sequence` `Precursor Charge` `Precursor Mz`
#>    <chr>                    <chr>                           <int>          <dbl>
#>  1 sp|P02769|ALBU_BOVIN Al… MKWVTFISLLLLFSSAY…                  2          1132.
#>  2 sp|P02769|ALBU_BOVIN Al… MKWVTFISLLLLFSSAY…                  3           755.
#>  3 sp|P02769|ALBU_BOVIN Al… WVTFISLLLLFSSAYSR                   2          1002.
#>  4 sp|P02769|ALBU_BOVIN Al… WVTFISLLLLFSSAYSR                   3           668.
#>  5 sp|P02769|ALBU_BOVIN Al… WVTFISLLLLFSSAYSR…                  2          1232.
#>  6 sp|P02769|ALBU_BOVIN Al… WVTFISLLLLFSSAYSR…                  3           821.
#>  7 sp|P02769|ALBU_BOVIN Al… DTHKSEIAHR                          2           597.
#>  8 sp|P02769|ALBU_BOVIN Al… DTHKSEIAHR                          3           399.
#>  9 sp|P02769|ALBU_BOVIN Al… SEIAHRFK                            2           494.
#> 10 sp|P02769|ALBU_BOVIN Al… SEIAHRFK                            3           330.
#> # ℹ 206 more rows
export_peptide_list(peps, format = "generic")
#> # A tibble: 157 × 9
#>    protein_id     peptide start   end length missed_cleavages  gravy    pI valid
#>    <chr>          <chr>   <int> <int>  <int>            <int>  <dbl> <dbl> <lgl>
#>  1 sp|P02769|ALB… MK          1     2      2                0 -1      9.25 FALSE
#>  2 sp|P02769|ALB… MKWVTF…     1    19     19                1  0.984 10.3  TRUE 
#>  3 sp|P02769|ALB… WVTFIS…     3    19     17                0  1.22   9.05 TRUE 
#>  4 sp|P02769|ALB… WVTFIS…     3    23     21                1  1.09  11.1  TRUE 
#>  5 sp|P02769|ALB… GVFR       20    23      4                0  0.525 10.3  FALSE
#>  6 sp|P02769|ALB… GVFRR      20    24      5                1 -0.48  12.5  FALSE
#>  7 sp|P02769|ALB… R          24    24      1                0 -4.5   10.3  FALSE
#>  8 sp|P02769|ALB… RDTHK      24    28      5                1 -3.16   9.25 FALSE
#>  9 sp|P02769|ALB… DTHK       25    28      4                0 -2.82   7.00 FALSE
#> 10 sp|P02769|ALB… DTHKSE…    25    34     10                1 -1.7    7.17 TRUE 
#> # ℹ 147 more rows
export_peptide_list(peps, format = "fasta")
#>   [1] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_1-19"   
#>   [2] "MKWVTFISLLLLFSSAYSR"                                                                 
#>   [3] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_3-19"   
#>   [4] "WVTFISLLLLFSSAYSR"                                                                   
#>   [5] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_3-23"   
#>   [6] "WVTFISLLLLFSSAYSRGVFR"                                                               
#>   [7] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_25-34"  
#>   [8] "DTHKSEIAHR"                                                                          
#>   [9] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_29-36"  
#>  [10] "SEIAHRFK"                                                                            
#>  [11] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_35-44"  
#>  [12] "FKDLGEEHFK"                                                                          
#>  [13] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_37-44"  
#>  [14] "DLGEEHFK"                                                                            
#>  [15] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_45-65"  
#>  [16] "GLVLIAFSQYLQQCPFDEHVK"                                                               
#>  [17] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_66-75"  
#>  [18] "LVNELTEFAK"                                                                          
#>  [19] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_66-88"  
#>  [20] "LVNELTEFAKTCVADESHAGCEK"                                                             
#>  [21] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_76-88"  
#>  [22] "TCVADESHAGCEK"                                                                       
#>  [23] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_76-100" 
#>  [24] "TCVADESHAGCEKSLHTLFGDELCK"                                                           
#>  [25] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_89-100" 
#>  [26] "SLHTLFGDELCK"                                                                        
#>  [27] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_89-105" 
#>  [28] "SLHTLFGDELCKVASLR"                                                                   
#>  [29] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_101-117"
#>  [30] "VASLRETYGDMADCCEK"                                                                   
#>  [31] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_106-117"
#>  [32] "ETYGDMADCCEK"                                                                        
#>  [33] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_106-122"
#>  [34] "ETYGDMADCCEKQEPER"                                                                   
#>  [35] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_118-130"
#>  [36] "QEPERNECFLSHK"                                                                       
#>  [37] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_123-130"
#>  [38] "NECFLSHK"                                                                            
#>  [39] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_123-138"
#>  [40] "NECFLSHKDDSPDLPK"                                                                    
#>  [41] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_131-138"
#>  [42] "DDSPDLPK"                                                                            
#>  [43] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_131-151"
#>  [44] "DDSPDLPKLKPDPNTLCDEFK"                                                               
#>  [45] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_139-151"
#>  [46] "LKPDPNTLCDEFK"                                                                       
#>  [47] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_139-155"
#>  [48] "LKPDPNTLCDEFKADEK"                                                                   
#>  [49] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_157-167"
#>  [50] "FWGKYLYEIAR"                                                                         
#>  [51] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_161-167"
#>  [52] "YLYEIAR"                                                                             
#>  [53] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_161-183"
#>  [54] "YLYEIARRHPYFYAPELLYYANK"                                                             
#>  [55] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_168-183"
#>  [56] "RHPYFYAPELLYYANK"                                                                    
#>  [57] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_184-197"
#>  [58] "YNGVFQECCQAEDK"                                                                      
#>  [59] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_184-204"
#>  [60] "YNGVFQECCQAEDKGACLLPK"                                                               
#>  [61] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_198-204"
#>  [62] "GACLLPK"                                                                             
#>  [63] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_198-209"
#>  [64] "GACLLPKIETMR"                                                                        
#>  [65] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_205-211"
#>  [66] "IETMREK"                                                                             
#>  [67] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_210-218"
#>  [68] "EKVLASSAR"                                                                           
#>  [69] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_212-218"
#>  [70] "VLASSAR"                                                                             
#>  [71] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_212-220"
#>  [72] "VLASSARQR"                                                                           
#>  [73] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_221-228"
#>  [74] "LRCASIQK"                                                                            
#>  [75] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_223-232"
#>  [76] "CASIQKFGER"                                                                          
#>  [77] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_229-235"
#>  [78] "FGERALK"                                                                             
#>  [79] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_233-241"
#>  [80] "ALKAWSVAR"                                                                           
#>  [81] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_236-245"
#>  [82] "AWSVARLSQK"                                                                          
#>  [83] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_242-248"
#>  [84] "LSQKFPK"                                                                             
#>  [85] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_246-256"
#>  [86] "FPKAEFVEVTK"                                                                         
#>  [87] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_249-256"
#>  [88] "AEFVEVTK"                                                                            
#>  [89] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_249-263"
#>  [90] "AEFVEVTKLVTDLTK"                                                                     
#>  [91] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_257-263"
#>  [92] "LVTDLTK"                                                                             
#>  [93] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_257-266"
#>  [94] "LVTDLTKVHK"                                                                          
#>  [95] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_264-280"
#>  [96] "VHKECCHGDLLECADDR"                                                                   
#>  [97] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_267-280"
#>  [98] "ECCHGDLLECADDR"                                                                      
#>  [99] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_267-285"
#> [100] "ECCHGDLLECADDRADLAK"                                                                 
#> [101] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_281-297"
#> [102] "ADLAKYICDNQDTISSK"                                                                   
#> [103] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_286-297"
#> [104] "YICDNQDTISSK"                                                                        
#> [105] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_286-299"
#> [106] "YICDNQDTISSKLK"                                                                      
#> [107] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_298-309"
#> [108] "LKECCDKPLLEK"                                                                        
#> [109] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_300-309"
#> [110] "ECCDKPLLEK"                                                                          
#> [111] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_300-318"
#> [112] "ECCDKPLLEKSHCIAEVEK"                                                                 
#> [113] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_310-318"
#> [114] "SHCIAEVEK"                                                                           
#> [115] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_319-340"
#> [116] "DAIPENLPPLTADFAEDKDVCK"                                                              
#> [117] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_341-359"
#> [118] "NYQEAKDAFLGSFLYEYSR"                                                                 
#> [119] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_347-359"
#> [120] "DAFLGSFLYEYSR"                                                                       
#> [121] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_347-371"
#> [122] "DAFLGSFLYEYSRRHPEYAVSVLLR"                                                           
#> [123] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_360-371"
#> [124] "RHPEYAVSVLLR"                                                                        
#> [125] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_360-374"
#> [126] "RHPEYAVSVLLRLAK"                                                                     
#> [127] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_372-386"
#> [128] "LAKEYEATLEECCAK"                                                                     
#> [129] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_375-386"
#> [130] "EYEATLEECCAK"                                                                        
#> [131] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_375-399"
#> [132] "EYEATLEECCAKDDPHACYSTVFDK"                                                           
#> [133] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_387-399"
#> [134] "DDPHACYSTVFDK"                                                                       
#> [135] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_387-401"
#> [136] "DDPHACYSTVFDKLK"                                                                     
#> [137] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_400-412"
#> [138] "LKHLVDEPQNLIK"                                                                       
#> [139] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_402-412"
#> [140] "HLVDEPQNLIK"                                                                         
#> [141] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_402-420"
#> [142] "HLVDEPQNLIKQNCDQFEK"                                                                 
#> [143] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_413-420"
#> [144] "QNCDQFEK"                                                                            
#> [145] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_413-433"
#> [146] "QNCDQFEKLGEYGFQNALIVR"                                                               
#> [147] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_421-433"
#> [148] "LGEYGFQNALIVR"                                                                       
#> [149] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_421-436"
#> [150] "LGEYGFQNALIVRYTR"                                                                    
#> [151] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_437-451"
#> [152] "KVPQVSTPTLVEVSR"                                                                     
#> [153] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_438-451"
#> [154] "VPQVSTPTLVEVSR"                                                                      
#> [155] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_438-455"
#> [156] "VPQVSTPTLVEVSRSLGK"                                                                  
#> [157] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_452-459"
#> [158] "SLGKVGTR"                                                                            
#> [159] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_456-468"
#> [160] "VGTRCCTKPESER"                                                                       
#> [161] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_460-468"
#> [162] "CCTKPESER"                                                                           
#> [163] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_460-482"
#> [164] "CCTKPESERMPCTEDYLSLILNR"                                                             
#> [165] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_469-482"
#> [166] "MPCTEDYLSLILNR"                                                                      
#> [167] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_469-489"
#> [168] "MPCTEDYLSLILNRLCVLHEK"                                                               
#> [169] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_483-489"
#> [170] "LCVLHEK"                                                                             
#> [171] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_483-495"
#> [172] "LCVLHEKTPVSEK"                                                                       
#> [173] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_490-498"
#> [174] "TPVSEKVTK"                                                                           
#> [175] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_496-507"
#> [176] "VTKCCTESLVNR"                                                                        
#> [177] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_499-507"
#> [178] "CCTESLVNR"                                                                           
#> [179] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_499-523"
#> [180] "CCTESLVNRRPCFSALTPDETYVPK"                                                           
#> [181] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_508-523"
#> [182] "RPCFSALTPDETYVPK"                                                                    
#> [183] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_508-528"
#> [184] "RPCFSALTPDETYVPKAFDEK"                                                               
#> [185] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_524-544"
#> [186] "AFDEKLFTFHADICTLPDTEK"                                                               
#> [187] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_529-544"
#> [188] "LFTFHADICTLPDTEK"                                                                    
#> [189] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_529-547"
#> [190] "LFTFHADICTLPDTEKQIK"                                                                 
#> [191] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_548-557"
#> [192] "KQTALVELLK"                                                                          
#> [193] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_549-557"
#> [194] "QTALVELLK"                                                                           
#> [195] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_549-561"
#> [196] "QTALVELLKHKPK"                                                                       
#> [197] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_558-568"
#> [198] "HKPKATEEQLK"                                                                         
#> [199] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_562-568"
#> [200] "ATEEQLK"                                                                             
#> [201] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_562-580"
#> [202] "ATEEQLKTVMENFVAFVDK"                                                                 
#> [203] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_569-580"
#> [204] "TVMENFVAFVDK"                                                                        
#> [205] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_569-587"
#> [206] "TVMENFVAFVDKCCAADDK"                                                                 
#> [207] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_581-587"
#> [208] "CCAADDK"                                                                             
#> [209] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_581-597"
#> [210] "CCAADDKEACFAVEGPK"                                                                   
#> [211] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_588-597"
#> [212] "EACFAVEGPK"                                                                          
#> [213] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_588-607"
#> [214] "EACFAVEGPKLVVSTQTALA"                                                                
#> [215] ">sp|P02769|ALBU_BOVIN Albumin OS=Bos taurus OX=9913 GN=ALB PE=1 SV=4|peptide_598-607"
#> [216] "LVVSTQTALA"