Table 4 Sequencing coverage of clinical isolates from Indonesia, using the multiplex and single-plex amplification approaches
From: Assessment of a multiplex PCR and Nanopore-based method for dengue virus sequencing in Indonesia
ID | Serotype | Genotype | Ct value | Reads passing QC | Coding-Region Coverage (%) | Single-plex Amplification Result (5′ → 3′) | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|
1X | 20X | 1 | 2 | 3 | 4 | 5 | |||||
BTM-077 | 1 | I | 15.2 | 76,301 | 100 | 100 | + | + | – | + | + |
BJM-249 | 1 | I | 28.2 | 51,554 | 100 | 95.89 | + | – | – | + | – |
BJM-188 | 1 | I | 36.6 | 57,002 | 99.95 | 86.58 | – | – | – | + | – |
BTM-233 | 2 | Cosmopolitan | 15.4 | 33,908 | 100 | 100 | + | + | + | + | + |
AMB-089 | 2 | Cosmopolitan | 26.3 | 42,694 | 100 | 100 | + | + | + | + | – |
BJM-150 | 2 | Cosmopolitan | 27.8 | 82,891 | 100 | 99.27 | + | – | – | – | – |
BJM-152 | 3 | I | 17.1 | 67,280 | 100 | 100 | + | + | + | + | + |
BJM-102 | 3 | I | 29.1 | 50,803 | 100 | 99.05 | + | + | – | + | – |
BJM-157 | 3 | I | 37.9 | 71,226 | 100 | 96.22 | – | – | – | – | – |
BJM-177 | 4 | II | 30.5 | 45,823 | 98.02 | 81.38 | – | – | + | – | – |