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 |
|
|
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.