Assay | Gene | Primer name | Sequence | Orientation | Position* | Product length | Annealing temperature | PCR round |
---|---|---|---|---|---|---|---|---|
Seminested | env | 563 | GAYATGRYRGARCAYATGAC | Forward | 7272-7291 | 818 bp | 47°C | 1 |
PCR |  | 564 | GCYAYATGCTGIACCATGGCATA | Reverse | 8067-8089 | 818 bp | 47°C | 1 |
 |  | 567 | GGIACIAAIACWAATTGGAC | Forward | 7482-7502 | 608 bp | 49°C | 2 |
 |  | 564 | GCYAYATGCTGIACCATGGCATA | Reverse | 8067-8089 | 608 bp | 49°C | 2 |
PERT assay | Â | MS2-5R | TGTAAGCCTGTGAACGCGAG | Reverse | 1464 | Â | Â | Â |
 |  | MS2-4f | CCGTATGGCCAACAACTGG | Forward | 1214 |  |  |  |
 |  | MS2-P45 | AGAGCCCTCAACCGGAGTTTGAAGCA | Probe | 1310 |  |  |  |
Quantitative | env | WasJam-F | ATGCCACAATCCTATATTCAAAATC | Forward | 7833-7855 | Â | Â | Â |
Real time PCR | Â | WasJam-R | GCTGCCTCTAACACTTGCTG | Reverse | 8046-8065 | Â | Â | Â |
 |  | WaJaRealTP | TGCTTGCTATCATGGCT | Probe | 7927-7943 |  |  |  |