Table 1.
Performance of ViroSeq primers for each subtype and CRF
| HIV-1 subtype or CRF | na | % of samples with result with primerb |
% for which >1 primer failed | ||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| A |
B |
C |
D |
F |
G |
H |
|||||||||||||||||
| HS | Neg | Pos | HS | Neg | Pos | HS | Neg | Pos | HS | Neg | Pos | HS | Neg | Pos | HS | Neg | Pos | HS | Neg | Pos | |||
| A/A1 | 3 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 33.3 | 33.3 | 33.3 | 0.0 | 0.0 | 100.0 | 0.0 | 33.3 | 66.7 | 66.7 |
| D | 5 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 20.0 | 80.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 |
| F2 | 7 | 0.0 | 28.6 | 71.4 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 0.0 | 14.3 | 85.7 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 28.6 |
| G | 5 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 60.0 | 40.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 |
| CRF01_AE | 1 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 |
| CRF02_AG | 89 | 0.0 | 12.4 | 87.6 | 0.0 | 0.0 | 100.0 | 0.0 | 1.2 | 98.8 | 0.0 | 41.7 | 58.3 | 4.5 | 6.7 | 88.8 | 0.0 | 0.0 | 100.0 | 3.4 | 28.1 | 68.5 | 21.3 |
| CRF09_cpx | 2 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 |
| CRF11_cpx | 6 | 0.0 | 33.3 | 66.7 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 50.0 | 50.0 | 0.0 | 16.7 | 83.3 | 0.0 | 16.7 | 83.3 | 0.0 | 16.7 | 83.3 | 16.7 |
| CRF22_01A1 | 3 | 0.0 | 33.3 | 66.7 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 |
| CRF25_cpx | 1 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 100.0 |
| CRF36_cpx | 1 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 |
| CRF37_cpx | 2 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 100.0 | 0.0 | 100.0 |
| Recombinant | 12 | 8.3 | 0.0 | 91.7 | 0.0 | 8.3 | 91.7 | 0.0 | 0.0 | 100.0 | 0.0 | 91.7 | 8.3 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 8.3 | 91.7 | 16.7 |
| Unclassified | 7 | 0.0 | 14.3 | 85.7 | 0.0 | 0.0 | 100.0 | 0.0 | 0.0 | 100.0 | 0.0 | 71.4 | 28.6 | 0.0 | 28.6 | 71.4 | 0.0 | 0.0 | 100.0 | 0.0 | 14.3 | 85.7 | 28.6 |
| Total | 144 | 0.7 | 11.8 | 87.5 | 0.0 | 0.7 | 99.3 | 0.0 | 1.4 | 98.6 | 0.0 | 52.6 | 47.4 | 3.5 | 8.3 | 88.2 | 0.0 | 0.7 | 99.3 | 2.8 | 21.5 | 75.7 | 20.1 |
a
Total number of samples that were sequenced using the ViroSeq primers.
b
HS, heterogeneous signal; Neg, negative; Pos, positive.