2011 NGS Field Guide – Table 3c – Error Rates

Table 3c. Error rates for commercially available DNA sequencing platforms in 2011. All Error rates are in percentages. Percentage of errors per base within single reads of the maximum length given in Table 2. As explained in Glenn (2011), rates among platforms are not exactly comparable. The reported Ion Torrent rates range from 0.46% to 2.4%. Final Error rates SOLiD rates are from reads with bases consistent on double or triple sequencing only. Final Error rate for PacBio applies only to the consensus sequencing for three independent reads of the same template. For Illumina, the 0.1% rate applies to > 85% of reads (not all reads). See Glenn (2011) for additional details.

N.B. If you think that these data are inaccurate or out of date, please post a comment below and we’ll attempt to include it in our next update (currently scheduled for May 2012).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 Primary Errors Single-pass Error Rate (%) Final Error Rate (%)
3730xl (capillary) substitution 0.1-1 0.1-1
454 GS Jr. Titanium indel 1 1
454 FLX Titanium indel 1 1
454 FLX+ indel 1 1*
PacBio RS CG deletions 15 0.4
Ion Torrent – 314 chip Indel ~1 ~1
Ion Torrent – 318 chip indel ~1 ~1*
SOLiD – 4 A-T bias ~5 >0.06*
SOLiD – 5500xl A-T bias ~5 >0.01*
Illumina MiSeq ~substitution >0.1 >0.1*
Illumina GAIIx substitution ≥0.1 ≥0.1
Illumina HiSeq 2000 substitution ≥0.1 ≥0.1

~ = Indicates a likely value based on unpublished information available in May 2011 (i.e., author speculation)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