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. 2012 Nov 15;13:303. doi: 10.1186/1471-2105-13-303

Table 3.

Base-calling probabilities example 3: 0-1 undercall

reference sequence: T
native 454: -
 
qs 0
qs 1
qs 2
qs 3
qs 4
QS454
-
-
-
-
-
HPCall: -
 
HPL 0
HPL 1
HPL 2
HPL 3
HPL 4
P^{Nnc=nbc}
0.75
0.25
2.9E-8
<1E-15
<1E-15
QSHPCall -6 1 0 0 0

Because there is no base called by the native 454 base-caller, also no quality score is provided. HPCall on the other hand generates probabilities for HPL 0 (0.75) and HPL 1 (0.25) and an associated QSHPCall at HPL 0 of -6, indicating that an undercall is not unlikely.