Table 2

P. hawaiensis transcriptome BLAST results

# Sequences

# BLAST hits against nr1 (%)

# Unique BLAST hits against nr1 (%)


Isogroups

25,735

n/a2

n/a2

Isotigs

35,301

10,424 (29.5%)

10,203 (28.9%)

Contigs

89,664

9,715 (10.8%)

n/a3

Singletons

276,564

9,583 (3.5%)

8,864 (3.2%)

Total Non-Redundant Assembly Sequences (= isotigs + singletons)

311,865

20,007 (6.4%)

19,067 (6.1%)


1. nr = NCBI non-redundant database

2. Because isogroups are collections of isotigs that are hypothesized to originate from the same gene, they do not comprise a single sequence and so cannot be compared by BLAST to nr.

3. The custom script UniqueBlast.pl was applied only to non-redundant assembly sequences (i.e. isotigs and singletons).

Zeng et al. BMC Genomics 2011 12:581   doi:10.1186/1471-2164-12-581

Open Data