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Table 5 Base-specific error rate a

From: Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of Low-frequency drug resistance mutations in HIV-1 DNA

Correct base

Read as:

Run1

A

C

G

T

Total

A

 

0.02%

0.10%

0.02%

0.13%

C

0.01%

 

0.01%

0.04%

0.05%

G

0.09%

0.01%

 

0.01%

0.10%

T

0.03%

0.08%

0.02%

 

0.13%

Run2 amplified b

A

C

G

T

Total

A

 

0.00%

0.07%

0.02%

0.09%

C

0.00%

 

0.00%

0.03%

0.03%

G

0.05%

0.00%

 

0.01%

0.06%

T

0.01%

0.05%

0.01%

 

0.07%

Run2 clone (MID2)

A

C

G

T

Total

A

 

0.00%

0.04%

0.01%

0.05%

C

0.01%

 

0.00%

0.06%

0.07%

G

0.04%

0.00%

 

0.01%

0.05%

T

0.01%

0.01%

0.00%

 

0.02%

  1. a Transition errors are marked in bold.
  2. b Run2 amplified samples include MID1 (100% wt), 2 (100% wt, no PCR), 5 (100% mutant), 7 (50% mutant), and 9 (50% mutant); Run2 clone is Run2 MID2.