Table 2

Assembly summary statistics

Primary assembly (MIRA)

Secondary assembly (MIRA+CAP3)


Number of reads assembled into contigs

574,134

640,285

Number of reads discarded during assembly

31,723

0

Number of 454 reads retained as singletons

75,865

9,714

Number of primary contigs (MIRA)

91,100

24,775

Number of secondary contigs (CAP3)

0

21,767

Total number of unique sequences (unigenes)

166,965

56,256

Mean unigene length (bp)

423.11

547.23

Largest unigene length (bp)

1,746

3,229

Total assembly length (Mbp)

70.65

30.79

Mean read depth coverage

3.03

6.96


A comparison of the primary and secondary assemblies. Secondary assembly was used to condense and join contigs and singletons from the primary assembly to reduce sequence level redundancy in the final unigene set.

Der et al. BMC Genomics 2011 12:99   doi:10.1186/1471-2164-12-99

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