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Table 2 Base-calling probabilities example 2: overcall

From: Improved base-calling and quality scores for 454 sequencing based on a Hurdle Poisson model

reference sequence: AA

native 454: AAA

 

qs 1

qs 2

qs 3

qs 4

qs 5

Q S 454

22

22

23

-

-

HPCall: AAA

 

HPL 1

HPL 2

HPL 3

HPL 4

HPL 5

P Ì‚ { N nc = n bc }

1.7E-10

0.29

0.71

3E-9

<1E-15

Q S HPCall

0

-1

5

0

0

  1. Base-calling probabilities example 2: overcall. HPCall gives a probability for HPL 3 of 0.29 and an associated Q SHPCall of 5. This indicates that it is not unlikely that the fourth called A is an overcall. This information can not be extracted from the quality scores of the native 454 base-caller.
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BMC Bioinformatics

ISSN: 1471-2105

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