Table 2. Description of chikungunya and dengue virus positive samples by real-time reverse transcription-PCR and corresponding Nanopore sequencing data, United Kingdom, 2017a (n = 8 samples).
| Sample | Ct value | cDNA amount used for the library (ng) | Sequencing kit (2D kit version) |
Flow cell (FLO-) |
1D total bp | 1D total reads |
1D mean read length (nt) |
1D max read length (nt) |
|---|---|---|---|---|---|---|---|---|
| CHIKV 1 | 14.7 | 431.5 | SQK-NSK007 | MIN105 | 1.51E + 08 | 267,171 | 564 | 92,712 |
| CHIKV 3 | 21.4 | 928.8 | SQK-LSK208 | MIN106 | 1.63E + 09 | 1,891,028 | 862 | 99,031 |
| CHIKV 4 | 22.7 | 113.4 | SQK-NSK007 | MIN105 | 1.74E + 08 | 216,493 | 805 | 125,387 |
| CHIKV 9 | 30.1 | 212.4 | SQK-LSK208 | MIN106 | 2.12E + 09 | 3,481,358 | 608 | 121,711 |
| DENV 1 | 16.3 | 1,626.0 | SQK-NSK007 | MIN105 | 2.42E + 08 | 284,622 | 851 | 115,494 |
| DENV 2 | 16.9 | 1,626.0 | SQK-NSK007 | MIN105 | 1.55E + 08 | 203,700 | 760 | 52,157 |
| DENV 6 | 21.2 | 475.0 | SQK-LSK208 | MIN106 | 1.22E + 09 | 1,377,721 | 886 | 118,733 |
| DENV 11 | 28.7 | 65.8 | SQK-LSK208 | MIN106 | 7.07E + 08 | 1,111,566 | 636 | 119,438 |
Ct: cycle threshold.
a The Nanopore data presented in the table were obtained in 2017 on samples that had been collected and found positive for chikungunya or dengue virus by real-time reverse transcription-PCR in 2016.