Table 5.
Comparison of the sensitivity for the RT-qPCR melting curve assay and Sanger sequencing for the training cohort.
| All samples | PCR assay | Sanger sequencing | PCR vs. Sanger | ||||
|---|---|---|---|---|---|---|---|
| Conclusive | Inconclusive | % | Conclusive | Inconclusive | % | P-value | |
| N501Y | 80 | 2 | 97.6 | 56 | 26 | 68.3 | 1.814 × 10–6 |
| E484K | 78 | 4 | 95.1 | 55 | 27 | 67.1 | 1.146 × 10–5 |
| K417N | 76 | 6 | 92.7 | 55 | 27 | 67.1 | 9.801 × 10–5 |
| P681H | 78 | 4 | 95.1 | 47 | 35 | 57.3 | 3.746 × 10–8 |
| N439K | 81 | 1 | 98.7 | 56 | 26 | 68.3 | 4.338 × 10–7 |
| Samples Ct > 31 | PCR assay | Sanger sequencing | PCR vs. Sanger | ||||
|---|---|---|---|---|---|---|---|
| Conclusive | Inconclusive | % | Conclusive | Inconclusive | % | P-value | |
| N501Y | 27 | 2 | 93.1 | 12 | 17 | 41.3 | 8.937 × 10–5 |
| E484K | 25 | 4 | 86.2 | 12 | 17 | 41.3 | 0.001043 |
| K417N | 23 | 6 | 79.3 | 11 | 18 | 37.9 | 0.003361 |
| P681H | 25 | 4 | 86.2 | 9 | 20 | 33.3 | 6.359 × 10–5 |
| N439K | 28 | 1 | 96.6 | 11 | 18 | 37.9 | 7.593 × 10–6 |
The samples are divided into two groups: conclusive and inconclusive. Conclusive is when a result was available of the analysis and inconclusive was when a result was not available. The analysis is made for all the samples and the samples with a low amount of viral SARS-CoV-2 RNA (Ct > 31).