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Table 1 Assembly and annotation statistics of the three de novo assemblies used in this study

From: Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa, document novel gene space of aus and indica

 

Nipponbare

IR64

DJ123

Total span

355.6 Mbp

345.2 Mbp

345.9 Mbp

Total bases

318.2 Mbp

316.3 Mbp

321.2 Mbp

Genome coveragea (span/bases)

91.2%/81.8%

88.5%/81.3%

88.6%/82.5%

Number of scaffolds

4,110

2,919

2,819

N50 scaffold span

213 kbp

293 kbp

323 kbp

Max scaffold span

1.37 Mbp

2.85 Mbp

2.38 Mbp

Number of contigs (>1,000 bp)

27,486

26,160

23,902

N50 contig size

21.9kbp

22.2 kbp

25.5 kbp

Max contig size

133 kbp

160 kbp

252 kbp

Total genes

39,083

37,758

37,812

Median gene length

2,224

2,275

2,285

Mean exons per transcript

4.8

4.8

4.9

  1. aAssumes the total genome size is 389 Mbp, as according to IRGSP [27].
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Genome Biology

ISSN: 1474-760X

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