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. 2010 Jun 18;26(14):1704–1707. doi: 10.1093/bioinformatics/btq269

Table 1.

Application of iCORN to prokaryotic and eukaryotic genome projects in various stages of completion

Organism Sequence quality Sequencing method Genome size (Mb) SNPs Indels Number rejected Genome covered
New mappable reads Iterations
Before (%) After (%)
Plasmodium falciparum 3D7 A Capillary 23 1906 368 30 97.20 97.56 24 698 6
Echinococcus multilocularis B Capillary 110 5508 2520 2140 48.89 49.11 1 023 315 5
Leishmania major B Capillary 33 594 1061 122 98.52 98.62 313 6
Leishmania infantum B Capillary 32 2770 1878 320 89.26 89.72 5629 8
Plasmodium ovale B Capillary 21 1431 238 1081 91.27 91.42 6368 4
Plasmodium berghei B 454 18 25 976 33 860 5639 88.65 95.38 140 788 7
Plasmodium berghei B Capillary 22 1901 3818 538 97.18 97.48 23 805 7
Chlaymiadia trachomatis B Capillary 1.0 487 16 18 99.86 99.997 9734 4
Clostridium difficile B 454 4.1 61 1652 32 99.30 99.43 1708 6
Streptococcus pneumoniae B RNAseq 2.0 13 5 1 64.23 64.23 6 3
Streptococcus suis BM402 A Capillary 2.1 2 1 0 98.84 98.85 15 2
Streptococcus suis P1_7 A Capillary 2.0 0 0 0 99.7626 0 1
Salmonella Dublin Strain B 454 5.0 13 45 18 96.84 96.85 207 7
Yersinia enterocolitica B Capillary 5.0 25 235 6 99.96 99.97 131 796 3

Sequence quality: ‘A’ indicates manually finished and published genomes and ‘B’ indicates a draft assembly. SNPs and Indels shows the total number called between the first and last iteration. Rejected indicates the total number of changes that were rejected because they decreased the total of perfectly mapping reads at that location. Percent genome covered indicates how many bases are covered at least five times by perfectly mapping reads, before and after the correction. New mapable reads indicates the additional number of reads that could be mapped by SSAHA between the first and last iteration. Further information can be found in Supplementary Table S3.