Table 1

Technical specifications of Next Generation Sequencing platforms utilised in this study
Platform Illumina MiSeq Ion Torrent PGM PacBio RS Illumina GAIIx Illumina HiSeq 2000
Instrument Cost* $128 K $80 K** $695 K $256 K $654 K
Sequence yield per run 1.5-2Gb 20-50 Mb on 314 chip, 100-200 Mb on 316 chip, 1Gb on 318 chip 100 Mb 30Gb 600Gb
Sequencing cost per Gb* $502 $1000 (318 chip) $2000 $148 $41
Run Time 27 hours*** 2 hours 2 hours 10 days 11 days
Reported Accuracy Mostly > Q30 Mostly Q20 <Q10 Mostly > Q30 Mostly > Q30
Observed Raw Error Rate 0.80 % 1.71 % 12.86 % 0.76 % 0.26 %
Read length up to 150 bases ~200 bases Average 1500 bases**** (C1 chemistry) up to 150 bases up to 150 bases
Paired reads Yes Yes No Yes Yes
Insert size up to 700 bases up to 250 bases up to 10 kb up to 700 bases up to 700 bases
Typical DNA requirements 50-1000 ng 100-1000 ng ~1 μg 50-1000 ng 50-1000 ng

* All cost calculations are based on list price quotations obtained from the manufacturer and assume expected sequence yield stated.

** System price including PGM, server, OneTouch and OneTouch ES.

*** Includes two hours of cluster generation.

**** Mean mapped read length includes adapter and reverse strand sequences. Subread lengths, i.e. the individual stretches of sequence originating from the sequenced fragment, are significantly shorter.

Quail et al.

Quail et al. BMC Genomics 2012 13:341   doi:10.1186/1471-2164-13-341

Open Data