Table 4.
Validation of gp60 gene target using Canadian and UK isolates.
| Sample origin | Number of samples | Number (%) contigs produced | Number (%) called correctly and able to produce contig | Number (%) called incorrectly | Number (%) flagged requiring manual analysis | Number (%) flagged in agreement with manual analysis | Number (%) flagged that are further resolved with manual analysis | Number (%) samples that a contig was unable to be produceda | Number (%) non-contig samples in agreement with manual analysis in one or both directionsa | Number (%) non-contig samples further resolved with manual analysisa |
|---|---|---|---|---|---|---|---|---|---|---|
| Canada: | ||||||||||
| Reverse | 36 | N/A | 30 (83.3%) | 0 (0%) | 6 (16.7%) | 6 (100%) | 0 (0%) | N/A | N/A | N/A |
| Contig | 109b | 96 (88.1%) | 65 (67.7%) | 0 (0%) | 31 (32.3%) | 29 (93.5%) | 2 (6.5%) | 13 (11.9%) | 11 (84.6%) | 2 (15.4%) |
| UK: | ||||||||||
| Reverse | 610c | N/A | 550 (90.2%) | 0 (0%) | 60 (9.8%) | 31 (51.7%) | 29 (48.3%) | N/A | N/A | N/A |
| Contig | 236d | 213 (90.3%) | 207 (97.2%) | 0 (0%) | 6 (2.8%) | 0 (0%) | 6 (100%) | 23 (9.7%) | 18 (78.3%) | 5 (21.7%) |
| Total: | ||||||||||
| Reverse | 646 | N/A | 580 (89.8%) | 0 (0%) | 66 (10.2%) | 37 (56.1%) | 29 (43.9%) | N/A | N/A | N/A |
| Contig | 345 | 309 (89.6%) | 272 (88.0%) | 0 (0%) | 37 (12.0%) | 29 (78.4%) | 8 (21.6%) | 36 (10.4%) | 29 (80.6%) | 7 (19.4%) |
a
Contig mode only.
b
2 samples were not typable either by CryptoGenotyper or manually so have been removed from this total.
c
88 samples were not typable either by CryptoGenotyper or manually so have been removed from this total.
d
13 samples were not typable either by CryptoGenotyper or manually so have been removed from this total.