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Table 1 Types of error

From: Accuracy and quality of massively parallel DNA pyrosequencing

Error type Number of occurrences Percent of errors Error rate
Insertions 58,337 36% 0.18%
   Homopolymer extension and CAFIE 32,858 20% 0.10%
   Not associated with homopolymers 25,479 16% 0.08%
Deletions 43,107 27% 0.13%
   Incomplete homopolymer extension 13,868 9% 0.04%
   Not associated with homopolymers 29,239 18% 0.09%
Mismatches 25,281 16% 0.08%
   Homopolymer extension and CAFIE 16,725 10% 0.05%
   Not associated with homopolymers 8,556 5% 0.03%
Ambiguous base calls (N) 34,184 21% 0.10%
Read errors Number of occurrences Cumulative percent of reads Percent of reads
   Reads with no errors (perfect match) 279,468 82% 82%
   Reads with no more than one error 35,813 93% 11%
   Reads with no more than two errors 11,651 96% 3%
   Reads with more than two errors 13,218 100% 4%
  1. Errors were classified as insertions, deletions, mismatches (substitutions) and ambiguous base calls (Ns). We further classified insertions, deletions and mismatches by their association with homopolymer effects. Deletions corresponding to an adjacent base are considered incomplete extension. Insertions and mismatches of the same base as an adjacent base are extensions. Insertions and mismatches that are the same as an upcoming homopolymer with no more than two intervening bases are considered carry forward errors.