Table 3

Transcriptome coverage estimates: ESTcalc

Input Parameters

ESTcalc estimate

Actual


Number of technologies

1

1

Technology

454 GS-FLX

454 GS-FLX (Titanium)

Library type

normalized

normalized

MB/Plate

254

254.0076

Reads/Plate

681,722

681,722

BP/Read (mean)

372.6

372.6


Predicted assembly statistics


Total Assembled Sequence (MB)

26.2

30.97

Unigene count

32,044

56,256

Mean unigene length (bp)

819

547.23

Mean unigene length (longest unigene per gene, bp)

1,143

--

Singleton yield (%)

19

17.2400

Percent transcriptome (%)

87

--

Percent of genes tagged (%)

100

--

Percent of genes with 90% coverage (%)

69.8

--

Percent of genes with 90% coverage by largest unigene (%)

56.4

--

Percent of genes with 100% coverage (%)

23.7

--

Percent of genes with 100% coverage by largest unigene (%)

22.2

--


Estimates of transcriptome coverage based on simulations modeled using the Arabidopsis thalliana floral transcriptome [57].

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

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