2011 NGS Field Guide – Table 2a – Run time, Reads, Yield


Table 2a. Comparison of sequencing platforms, sorted by cost/MB (Table 2b)

N.B. If you think that these data are inaccurate or out of date, please post a comment below and we’ll attempt to include it in our next update (currently scheduled for May 2012).

Instrument Run timea Millions of Reads/run Bases / readb Yield MB/run
3730xl (capillary) 2 hrs. 0.000096 650 0.06
Ion Torrent – ‘314’ chip 2 hrs. 0.10 100 >10
454 GS Jr. Titanium 10 hrs. 0.10 400 50
Starlight * ? ~0.01 >1,000 ?
PacBio RS 0.5 – 2 hrs. 0.01 860 – 1,100 5-10
454 FLX Titanium 10 hrs. 1 400 500
454 FLX+c 18 – 20 hrs. 1 700 900
Ion Torrent – ‘316’ chip 2 hrs. 1 >100 >100
Helicosd N/A 800 35 28,000
Ion Torrent – ‘318’ chip 2 hrs. 4-8 >100 >1,000
Illumina MiSeq * 26 hrs. 3.4 150+150 1020
Illumina iScanSQ 8 days 250 100+100 50,000
Illumina GAIIx 14 days 320 150+150 96,000
SOLiD – 4 12 days >840e 50+35 71,400
Illumina HiSeq 1000 8 days 500 100+100 100,000
Illumina HiSeq 2000 8 days 1000 100+100 200,000
SOLiD – 5500 (PI) * 8 days >700e 75+35 77,000
SOLiD – 5500xl (4hq) * 8 days >1,410e 75+35 155,100
Illumina HiSeq 2000 – v3f* 10 days ≤3000 100+100 ≤600,000

a Instrument time for maximum read length

b Average length for high quality reads >200 bases (mode is higher); typical maximum for reads ≤150 bases (most reads reach this length)

c Upgrade of the FLX instrument, due out summer 2011

d Instruments and reagents are no longer sold; services are available for any organism.

e Mappable reads [number of raw high quality reads (as reported for all other platforms) is higher]

f Announced TruSeq v3 reagents & software, reads and yield are half for HiSeq1000.


* Information based on company sources alone (independent data not yet available)
~ Indicates a likely value based on unpublished information available in May 2011 (i.e., author speculation)