Assessing the impact of exact reads on reducing the error rate of read mapping

BMC Bioinformatics

Table 7 Real dataset analysis where a closely related genome is used as a reference

Assembly	Exact	EIM (v1)	EIM (v2)	Bowtie2	MaSuRCA	EIM (v1) + MaSuRCA
Contigs-500	497	334	263	259	114	114
N50 (kbp)	12.3	22.2	32	29.3	106	106
Errors	58	618	1190	2472	2407	1786
IUPAC-codes	0	17	56	280	0	5
Genome-Fraction (%)	87.013	87.811	88.578	88.575	99.058	99.058

The evaluation metrics has been defined in the text. The columns headed ’Exact’, ’EIM (v1)’, ’EIM (v2)’, ’Bowtie2’, ’MaSuRCA’ and ’EIM (v1) + MaSuRCA’ represent the contiguity and quality of contigs constructed by ExactMapping step of EIM, EIM (v1), EIM (v2), Bowtie2, MaSuRCA and combining the contig sets of EIM (v1) and MaSuRCA assembler, respectively

ISSN: 1471-2105