Table 1.
Base-calling probabilities example 1: undercall
| reference sequence: AAAAA | |||||
|---|---|---|---|---|---|
|
native 454: AAAA | |||||
| |
qs 2 |
qs 3 |
qs 4 |
qs 5 |
qs 6 |
|
QS454 |
28 |
22 |
22 |
- |
- |
|
HPCall: AAAA | |||||
| |
HPL 2 |
HPL 3 |
HPL 4 |
HPL 5 |
HPL 6 |
|
|
<1E-15 |
7.4E-9 |
0.83 |
0.17 |
6.3E-11 |
| QSHPCall | 0 | 0 | -8 | 1 | 0 |
The estimated probability for HPL 5 (0.17) and the associated QSHPCall (-8) provided by HPCall clearly indicate the possibility of having an undercall with respect to the reference sequence, whereas this information is lacking in the quality scores of the native 454 base-caller.