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Table 1 Results from targeted sequencing libraries

From: Targeted sequencing library preparation by genomic DNA circularization

Experiment

1

2

3

4

5

Hybridization temperature (°C)

60

55

50

55

60

Number of PCR cycles

25

25

25

Direct

25

Sequencing read length (mate pair versus single)

42

42

42

42

42 by 42

Total reads

12,542,683

15,605,713

12,435,664

1,232,093

33,750,858

Mapped reads a

8,576,700

13,415,111

7,381,662

11,726

31,325,015

Captured on-target fragment-end reads c

7,560,090

11,105,527

6,330,012

8,488

30,994,237

Captured off-target reads

(as % of mapped)

1,016,610

(12%)

2,309,584

(17%)

1,051,650

(14%)

3,238

(28%)

660,937

(2%)

On-target fragment-end sequences (bases) c

4,410

4,410

4,410

4,410

8,778

Captured on-target fragment-ends with 1× (bases) c, d

(as % of on-target region-of-interest)

3,145

(71%)

3,340

(76%)

3,044

(69%)

2,809

(64%)

6,628

(75%)

Captured on-target fragment-ends with 30× (bases)b, c

(as % of on-target region-of-interest)

2,932

(66%)

3,128

(71%)

2,961

(67%)

2,160

(49%)

6,460

(73%)

Average on-target fragment-end fold-coverage

72,001

105,767

60,286

81

149,100

  1. a ELAND alignment. b Sequencing fold-coverage > 30. c Compilation of 42-base end-sequences from circularized targets. d Sequencing fold-coverage > 1.