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Table 1 Reference assembly of each accession onto Nipponbare genome

From: SNP-based analysis of genetic diversity in anther-derived rice by whole genome sequencing

 

# of readsa

Mapped reads

Depth

All mapped nucleotide (bp)

Coverage (%)

3+ mapped nucleotideb(bp)

Coverage (%)

(#)

(%)

Dongjin

220,275,464

197,217,131

89.53

53.19

365,559,219

95.5

363,351,121

94.92

Sub total

220,275,464

197,217,131

89.53

53.19

365,559,219

95.5

363,351,121

94.92

Hwayeong

233,203,421

206,036,766

88.35

54.36

364,116,034

95.12

361,752,130

94.5

BLB

236,387,205

208,936,303

88.39

55.13

364,684,871

95.27

362,481,239

94.7

HY-04

237,106,362

207,858,683

87.66

54.85

363,086,064

94.85

360,729,934

94.24

HY-08

238,445,614

210,468,066

88.27

55.53

363,324,672

94.92

360,872,314

94.27

Sub total

945,142,602

833,299,818

352.67

219.87

1,455,211,641

380.16

1,445,835,617

377.71

Sub average

236,285,651

208,324,955

88.17

54.97

363,802,910

95.04

361,458,904

94.43

Total

1,165,418,066

1,030,516,949

442.20

273.06

1,820,770,860

475.66

1,809,186,738

472.63

Average

233,083,613

206,103,390

88.44

54.61

364,154,172

95.13

361,837,348

94.53

  1. a: the number of reads which were generated by high-throughput sequencer.
  2. b: base pair of nucleotide which mapped over 3 reads on one site.