Table 2

Representative coverage statistics from exome re-sequencing (2 × 100 bp) of six mutant strains

Sample


5330 (hbck)

6246 (sunk)

8568 (lear)

12856 (shep)

13782 (aphl)

13716 (vgim)


Targeted exons

203,224

203,224

203,224

203,224

203,224

203,224

Final target bases

54,367,244

54,367,244

54,367,244

54,367,244

54,367,244

54,367,244

Target bases covered

52,934,978

52,493,811

52,832,014

52,647,881

52,664,921

53,004,900

Percentage target bases covered

97.37

96.55

97.18

96.84

96.87

97.49

Target bases not covered

1,432,266

1,873,433

1,535,230

1,719,363

1,702,323

1,362,344

Percentage target bases not covered

2.63

3.45

2.82

3.16

3.13

2.51

Total readsa

39,675,108

39,641,830

31,817,686

42,405,386

59,956,764

67,359,382

Number of reads in target regions

23,319,015

23,335,916

19,211,748

25,227,205

36,227,876

39,948,582

Percentage reads in target regions

58.77

58.87

60.38

59.49

60.42

59.31

Average coverage

32.72

32.59

26.75

35.32

50.78

56.31

Median coverage

30.33

30.02

23.23

33.02

46.61

50.02

Coverage at 20×

76.4

73.6

61.9

77.5

85.8

88

Coverage at 10×

92.1

89.3

87.1

90.7

92.9

94.5

Coverage at 5×

95.7

93.8

94.3

94.4

95.1

96.2

Coverage at 1×

97.4

96.6

97.2

96.8

96.9

97.5

NC80

0.51

0.47

0.46

0.49

0.47

0.46

1/NC80

1.94

2.13

2.18

2.06

2.13

2.17


1/NC80 is the fold 80 penalty, which represents the fold of over sequencing necessary to move 80% of the below median bases to median. Coverage statistics for all samples sequenced can be found in Additional file 3. a2 × 100 bp, Illumina HiSeq.

Fairfield et al. Genome Biology 2011 12:R86   doi:10.1186/gb-2011-12-9-r86

Open Data