Table 1 The matching of primers and probes
From: Development of a recombinase-aided amplification assay for rapid detection of human norovirus GII.4
Primer Name | Sequence (5′ → 3′) | Nucleotide | Length | Matching of primer and probe | ||
|---|---|---|---|---|---|---|
0–2 bp | 3–4 bp | ≥5 bp | ||||
RF1 | ATTTTTACGTGCCCAGACAAGAGCCAATGTTCAG | 4986–5019/ | 34 bp | 96.4%(53/55) | 0 (0/55) | 3.6%(2/55) |
RF2 | CAAGAGCCAATGTTCAGATGGATGAGATTCTCAG | 5003–5036/ | 34 bp | 96.4%(53/55) | 0 (0/55) | 3.6%(2/55) |
RR1 | TCAGATGGGTTGGCGTCACTCGACGCCATCTTC | 5087–5119/ | 33 bp | 96.4%(53/55) | 3.6%(2/55) | 0 (0/55) |
RR2 | GACCCATCAGATGGGTTGGCGTCACTCGACGCC | 5093–5125/ | 33 bp | 92.7%(51/55) | 7.3%(4/55) | 0 (0/55) |
RR3 | TTGGCTGTGGACCCATCAGATGGGTTGGCGTC | 5103–5134/ | 32 bp | 96.4%(53/55) | 3.6%(2/55) | 0 (0/55) |
RR4 | ACGAGGTTGGCTGTGGACCCATCAGATGGGTTGGC | 5106–5140/ | 35 bp | 96.4%(53/55) | 3.6%(2/55) | 0 (0/55) |
RR5 | ACCAGGGGCTTGTACAAAATTGTTTCTAATCCAG | 5234–5267/ | 34 bp | 94.5%(52/55) | 5.5%(3/55) | 0 (0/55) |
RR6 | TTCTAGGGGATACTGTAAACTCTCCACCAG | 5263–5292/ | 30 bp | 100%(55/55) | 0 (0/55) | 0 (0/55) |
RR7 | TGTTTCTAATCCAGGGGTCAATTACATTTTGT | 5216–5247/ | 32 bp | 98.2%(54/55) | 1.8%(1/55) | 0 (0/55) |
RR8 | AGCCATAACCTCATTGTTGACCTCTGGGACGAG | 5136–5168/ | 33 bp | 98.2%(54/55) | 1.8%(1/55) | 0 (0/55) |
RR9 | TGGCCAAATGGGAAAGGTAGGGGTTCAGATCAG | 5332–5364/ | 33 bp | 49.1%(27/55) | 45.4%(25/55) | 5.5%(3/55) |
RR10 | ATTCTGGCCAAATGAGAAAGGTAGGGATTCAG | 5337–5368/ | 32 bp | 47.3%(26/55) | 47.3%(26/55) | 5.5%(3/55) |
RR11 | TATTTCACCTGGAGCGTTTCTAGGGGATACTG | 5278–5309/ | 32 bp | 96.4%(53/55) | 3.6%(2/55) | 0 (0/55) |
ROPa | TCAGACCTGAGCACGTGGGAGGGCGATCGCAAFHQGGCTCCCAGTTTTGT | 5033–5082/ | 50 bp | 96.4%(53/55) | 3.6%(2/55) | 0 (0/55) |