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Table 3 Statistics of sequencing depth and fraction of target covered

From: Association between single nucleotide polymorphisms, TGF-β1 promoter methylation, and polycystic ovary syndrome

Sample

I-2

III-3

II-2

II-5

Total reads

67,101,716

82,770,842

69,279,058

66,350,348

Duplicate reads

(Rate: duplicate reads/clean reads)

14,421,085

(21.51%)

19,975,421

(24.15%)

12,631,824

(18.25%)

10,389,088

(15.67%)

Mapped reads a

67,051,047

(99.92%)

82,712,631

(99.93%)

69,231,702

(99.93%)

66,308,692

(99.94%)

Average sequencing depth on target b

107.66

135.16

123.71

117.01

Fraction of target covered with at least 10x c

97.6%

98.2%

97.4%

97.0%

  1. a Total number of reads aligned to reference genome (proportion). b Average sequencing depth of target region (total data volume aligned to target region/total length of target region). c Proportion of bases in the target region that cover a depth of not less than 10X