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Table 1 Empirical and statistical scores along with associated parameters (p 1 and p 2) for each spectrum shown in Figure 1. The data were obtained for mass accuracies of 1.0 Da, 0.1 Da and 0.01 Da. Confidence levels were calculated based on a search space of 2726345 theoretical peptides. The confidence levels for the pp and pp2 scores are denotes as confidence level and confidence level2

From: A mass accuracy sensitive probability based scoring algorithm for database searching of tandem mass spectrometry data

Mass accuracy Spectrum p 1 p 2 score pp pp2 Confidence level Confidence level 2
0.01 Da a 2.1. × 10-5 7.9. × 10-4 69 53.8 307.6 52.0 305.8
  b 2.1. × 10-5 2.1. × 10-3 75 69.0 307.6 67.2 305.8
  c 2.1. × 10-5 9.2. × 10-4 59 43.0 307.6 41.2 305.8
  d 2.1. × 10-5 1.5. × 10-3 19 75.2 307.6 73.4 305.8
  e 2.1. × 10-5 6.5. × 10-4 27 36.6 307.6 34.8 305.8
0.1 Da a 2.1. × 10-4 7.8. × 10-3 77 38.6 203.9 35.8 201.1
  b 2.1. × 10-4 2.1. × 10-2 95 46.7 157.5 43.9 154.7
  c 2.1. × 10-4 9.1. × 10-3 68 26.9 274.7 24.1 271.9
  d 2.1. × 10-4 1.5. × 10-2 20 45.2 37.3 42.4 34.5
  e 2.1. × 10-4 6.5. × 10-3 28 23.7 82.8 20.9 80.0
1.0 Da a 2.1. × 10-3 7.8. × 10-2 100 22.1 21.3 18.3 17.5
  b 2.1. × 10-3 2.1. × 10-1 120 16.0 12.1 12.2 8.3
  c 2.1. × 10-3 9.1. × 10-2 74 7.8 23.1 4.0 19.3
  d 2.1. × 10-3 1.5. × 10-1 55 15.5 6.1 11.7 2.3
  e 2.1. × 10-3 6.4. × 10-2 36 14.7 9.0 10.9 5.2