Hepatitis C virus genetic variability and evolution

Table 1 Representative next generation sequencing platforms and their characteristics

Platform	Run time (h)	Read length (bp)	Throughput per run (Mb)	Typical errors	Main biological applications	Company URL
Roche 454 FLX +	23	700, up to 1000	700	Insertions/deletions (indels) at homopolymer regions	Microbial genome sequencing, human genome sequencing, transcriptomics, metagenomics	http://www.my454.com/
Illumina HySeq 1000 MySeq 2000 V3	8 10	2 × 100 2 × 150	400000 < 600000	Indels, especially end of reads	Microbial genome sequencing, human genome sequencing, transcriptomics, metagenomics	http://www.illumina.com/systems.ilmn
SOLiD 4	12	50 × 35	71000	End of read substitution errors	Microbial genome sequencing, human genome sequencing, transcriptomics, metagenomics	http://www.appliedbiosystems.com/ absite/us/en/home.html
Ion torrent PGM 318 Chip	3	200	1000	Indels at homopolymer regions	Microbial genome sequencing, human genome sequencing, transcriptomics, metagenomics	http://www.iontorrent.com/
Pacific Biosciences				Random indel errors	Full-length transcriptomics, discovering large structural variants and haplotypes	http://www.pacificbiosciences.com/