Table 1.
Concordance Between the Breakpoint-Specific PCR vs Read Depth and qPCR in Detecting pvmdr1 CN Variation
| Variable | Breakpoint-Specific PCR |
Concordance, % | |||
|---|---|---|---|---|---|
| CN1 | CN2+ | Fail | Total | ||
| Sequence read depth: Thailand | |||||
| CN1 | 57 (22a) | 13 (13) | 1 | 71 | … |
| CN2+ | 0 | 17 (7) | 0 | 17 | … |
| Total | 57 | 30 | 1 | 88 | 85 |
| qPCR: Thailand | |||||
| CN1 | 33 (11b) | 3 (2) | 1 | 37 | … |
| CN2+ | 1 (0) | 9 (4) | 1 | 11 | … |
| Total | 34 | 12 | 2 | 48 | 91 |
| qPCR: Indonesia | |||||
| CN1 | 25 | 0 | 2 | 27 | … |
| CN2+ | 0 | 0 | 0 | 0 | … |
| Total | 25 | 0 | 2 | 27 | 100 |
Number of polyclonal infections as defined by microsatellite genotyping are indicated in parentheses. Genotyping was not undertaken in the Indonesian isolates.
Abbreviation: CN, copy number.
a Two isolates with genotyping failure.
b One isolate with genotyping failure.