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Table 2 SMRT de novo genome assembly statistics

From: The genomic landscape of the verrucomicrobial methanotroph Methylacidiphilum fumariolicum SolV

 

Draft genome1

SMRT de novo2

Number of reads

16,099,262

48,452

Sequencing depth

401.23×

36.34×

Number of contigs

109

1

Bases in scaffolds

2,362,416 bp

2,476,673 bp*

N50

50,138 bp

2,476,673 bp

Maximum length

166,468 bp

2,476,673 bp

GC content

40.91%

41.48%

Genome coverage

95.54%**

100%***

Accuracy

99.9958%

99.9998%

  1. 1Draft genome assembled using Illumina GAII and Roche 454 reads using CLCBio (CLCBio, Aarhus, Denmark) and curated manually [6].
  2. 2SMRT de novo assembly was carried out on corrected PacBio reads using Celera Assembler 7.0.
  3. *The total bases in the scaffolds were determined after circularization of the final assembly.
  4. **The overall genome coverage is determined by calculating the total number of gaps in the draft genome as compared to the final assembly.
  5. ***The genome coverage of SMRT de novo is determined by aligning PacBio reads, generated by two independent SMRT sequencing runs, to the final assembly.
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BMC Genomics

ISSN: 1471-2164

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