Table 2

Description of assemblies, Illumina reads and performance of IMAGE

Statistics of draft assembly

Illumina reads used

IMAGE performance


Organisms

Read type

Size (Mb)

N50a(kb)

Read length

Coverageb

Insert sizec

Total gapsd

Gaps closed


Salmonella enterica 1

454

4

117

54

295

225

73

49 (68%)

Salmonella enterica 2

Illumina

4

87

54

274

220

233

194 (83%)

Clostridium difficile

454

4

76.5

54

331

249

118

55 (47%)

Bordetella bronchiseptica

454

5

5

54

420

321

918

397 (43%)

Plasmodium bergheie

Cap+454+Illumina

18.5

189

76

140

130

156

71 (46%)

Leishmania donovani

454

30

10

76

83

176

3,826

1,768 (46%)

Echinococcus multilocularis

Cap+454

107

108

75

126

310

1,676

895 (53%)

Schistosoma mansoni

Cap

307

24

108

30

219

25,214

13,771 (55%)


aThe minimum contig length cutoff to include contigs in a given assembly to have 50% of total assembled sequence. bEstimated coverage is calculated as Length of Illumina read × Number of reads/Assembled genome size. cInsert size is defined as the averaged physical distance between two sequenced fragments that were unambiguously aligned against the contig sequence of the initial assembly. dGap is defined as the region between contigs within a scaffold that has no sequence information. eThe core set of Plasmodium berghei contigs that were aligned to the closely related reference sequence of Plasmodium chabaudi. Cap, capillary reads.

Tsai et al. Genome Biology 2010 11:R41   doi:10.1186/gb-2010-11-4-r41

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