De Novo Draft Genome Assembly Using Fuzzy K-mers

摘要

Although second generation sequencing technology can be used to rapidly sequence an entire genome, assembly algorithms require a high level of coverage to produce a complete genomic sequence. We describe a fuzzy k-mer approach that is capable of rapidly ordering and orientating low coverage sequence reads with a high level of accuracy. Using this approach, a draft genome of Mycoplasma genitalium, sampled at varying low levels of coverage, was accurately anchored against the genome of Mycoplasma pneumoniae. The anchored reads were assembled into scaffolds with a vastly increased N50 length and an error rate of <1.5%.