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Table 5 Sequencing technology error rates

From: Characterizing and measuring bias in sequence data

Data set Fractional error rate
Sample # Platform Mismatches Deletions Insertions Total
P. falciparum 1 Illumina MiSeq 0.0046 0.00021 0.00011 0.0049
  2 Ion Torrent PGM 0.0038 0.0090 0.0068 0.020
  3 Pacific Biosciences RS 0.0068 0.033 0.14 0.18
E. coli 4 Illumina MiSeq 0.0036 0.0000097 0.0000051 0.0037
  5 Ion Torrent PGM 0.0018 0.0053 0.0044 0.012
  6 Pacific Biosciences RS 0.0077 0.032 0.17 0.21
R. sphaeroides 7 Illumina MiSeq 0.0030 0.000018 0.0000089 0.0030
  8 Ion Torrent PGM 0.0014 0.0055 0.0037 0.011
  9 Pacific Biosciences RS 0.0076 0.029 0.16 0.20
Human 14 Illumina HiSeq 0.0030 0.00023 0.00017 0.0034
  15 Ion Torrent PGM 0.0060 0.0069 0.0057 0.019
  16 Complete Genomics 0.023 0.000099 0.000091 0.024
  1. For a subset of the data sets in Table 2, we show the fractional rates of mismatch, deletion, and insertion, computed relative to coverage, inferred by comparison to the reference sequences. For human we note that bona fide differences between the sample and reference sequence were recorded as errors.