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Table 2 Potential accuracy for reads missed and incorrectly mapped by Bowtie, as determined by the APF mapping.

From: ADaM: augmenting existing approximate fast matching algorithms with efficient and exact range queries

 

1x

2x

10x

 

Total

Accuracy

Total

Accuracy

Total

Accuracy

skipped

56

98.21

183

96.17

3427

80.84

wrong

346

89.30

463

84.88

351

62.68

  1. At 10x, 80% of the 3,427 reads Bowtie did not map had a unique mapping in the genome. Even with a normal error profile, 55 out of 56 reads skipped by Bowtie could have been uniquely mapped. At normal error rates, 346 sequences were incorrectly mapped to a worse location than where they originated.