Table 2 Illumina sequencing data and polymorphism statistics for five population samples of Lumnitzera racemosa.

From: Pronounced genetic differentiation and recent secondary contact in the mangrove tree Lumnitzera racemosa revealed by population genomic analyses

 

QH

SY

KP

JH

KD

Number of sequenced genes

88

88

86

84

85

Illumina platforms

Illumina GA

Illumina GA

HiSeq 2000

HiSeq 2000

HiSeq 2000

Length of short paired-end reads

75

75

90

90

90

Total reads (×106)

15.18

13.24

12.77

12.82

12.81

Aligned reads (×106)

14.53

12.58

12.03

11.45

11.76

Percentage of mapped reads (%)

95.76

94.98

94.21

89.28

91.83

Mean depth

5990×

5127×

6061×

5617×

5618×

Number of polymorphic genes

29

31

78

12

14

Number of SNPs

36

39

724

38

26

Average of π (×10−3)

0.080 (±0.232)

0.112 (±0.260)

1.021 (±0.815)

0.156 (±0.404)

0.099 (0.280)

θ (×10−3)

0.077

0.080

2.434

0.133

0.084

  1. Population abbreviations are defined in Table 1. π, nucleotide diversity; θ, nucleotide polymorphism. Numbers in parenthesis represent the standard deviation (sd) of the π values. Polymorphic genes: the genes contain one or more SNPs in each population.
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