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.