Table 1.

Empirical and statistical scores along with associated parameters (p1 and p2) 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

Mass accuracy	Spectrum	p1	p2	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