Illustration of platform-specific errors. The panels show Artemis BAM views with reads (horizontal bars) mapping to defined regions of chromosome 11 of P. falciparum from PacBio (P; top), Ion Torrent (I; middle) and MiSeq (M; bottom). Red vertical dashes are 1 base differences to the reference and white points are indels. A) Illustration of errors in Illumina data after a long homopolymer tract. Ion torrent data has a drop of coverage and multiple indels are visible in PacBio data. B) Example of errors associated with short homopolymer tracts. Multiple insertions are visible in the PacBio Data, deletions are observed in the PGM data and the MiSeq sequences read generally correct through the homopolymer tract. C) Example of strand specific deletions (red circles) observed in Ion Torrent data.
Quail et al. BMC Genomics 2012 13:341 doi:10.1186/1471-2164-13-341