Skip to main content

Table 1 Quality filtering of Illumina GAIIx data before assembly and mapping

From: Characterizing the developmental transcriptome of the oriental fruit fly, Bactrocera dorsalis (Diptera: Tephritidae) through comparative genomic analysis with Drosophila melanogaster utilizing modENCODE datasets

 

Average quality (interquartile range)

GC content (percent)

 

Number of reads

Before filtering

After filtering

Before filtering

After filtering

Stage

Before filtering

After filtering

Percent retained

Base 5

Base 50

Base 95

Base 5

Base 50

Base 95

Base 5

Base 50

Base 95

Base 5

Base 50

Base 95

Egg

29899982

24924408

83.4%

36.7

(4)

34.1

(7)

24.9

(25)

37.7

(2)

36.6

(5)

29.3

(8)

40.0

41.1

41.9

38.9

39.8

40.6

Larvae

28913860

23506167

81.3%

36.7

(4)

33.8

(6)

23.5

(33)

37.7

(2)

36.4

(5)

28.2

(8)

41.2

42.8

44.2

40.1

41.4

42.8

Pupae

31954342

26582294

83.2%

36.8

(4)

34.2

(7)

24.6

(33)

37.7

(2)

36.6

(5)

29.0

(8)

40.6

42.0

42.8

39.4

40.6

41.4

Male

41546048

35350086

85.1%

37.4

(2)

35.1

(5)

25.8

(17)

38.2

(2)

37.3

(4)

29.8

(7)

39.7

41.5

42.4

38.5

40.0

41.1

Female

35096592

29240854

83.3%

36.9

(4)

34.4

(7)

24.7

(33)

37.8

(2)

36.7

(5)

29.0

(8)

39.7

41.9

42.8

38.5

40.5

41.4

Mated Female

35318474

29909305

84.7%

36.9

(4)

34.5

(7)

25.3

(18)

37.8

(2)

36.7

(5)

29.4

(8)

38.5

40.9

41.9

37.4

39.6

40.8

Total

202729298

169513114

83.6%

36.9

(3.5)

34.4

(6.5)

24.9

(26)

37.8

(2)

36.7

(4.8)

29.2

(7.8)

39.9

41.7

42.6

38.7

40.3

41.3