Table 1.
Sequencing metadata and assembly information for Ross River virus (RRV) and Umatilla virus (UMAV) spiked mosquito pool samples.
| Sample name | S1.1 | S1.2 | S1.3 | S2.1 | S2.2 | S2.3 | S3.1 | S3.2 | S3.3 | S4.1 | S4.2 | S4.3 | S5.1 | S5.2 | S5.3 | Neg |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| RRV spike dilution | 1:1 | 1:20 | 1:400 | 1:8,000 | 1:160,000 | 0 | ||||||||||
| UMAV spike dilution | 1:160,000 | 1:8,000 | 1:400 | 1:20 | 1:1 | 0 | ||||||||||
| Reads (millions) | 22.6 | 23.45 | 19.1 | 19.45 | 17.1 | 17.05 | 18.65 | 20.45 | 21.05 | 22.55 | 18.9 | 21.2 | 23.25 | 19.1 | 19.45 | 21.7 |
| Viral reads (%) | 16.0 | 15.4 | 15.9 | 15.9 | 16.9 | 16.3 | 15.2 | 14.6 | 15.1 | 14.6 | 15.6 | 11.6 | 17.1 | 16.9 | 16.9 | 15.1 |
| No. of viral contigs | 527 | 536 | 545 | 540 | 551 | 494 | 482 | 557 | 539 | 550 | 511 | 518 | 497 | 491 | 513 | 529 |
| RRV contigs | 20 | 16 | 26 | 9 | 25 | 14 | 2 | 6 | 4 | 0 | 3 | 0 | 3 | 0 | 1 | 2 |
| UMAV contigs | 4 | 21 | 6 | 16 | 10 | 6 | 64 | 48 | 52 | 32 | 33 | 33 | 38 | 34 | 48 | 6 |
| RRV (%)a | 100.0 | 100.0 | 100.0 | 100.0 | 97.0 | 94.5 | 3.7 | 11.8 | 11.1 | 0.0 | 5.1 | 0.0 | 5.0 | 0.0 | 4.4 | 3.7 |
| UMAV (%)b Total: | 5.8 | 26.0 | 7.4 | 21.2 | 16.2 | 9.1 | 92.9 | 83.0 | 90.3 | 98.7 | 98.8 | 98.8 | 98.6 | 99.1 | 98.9 | 7.9 |
| Seg 1 (VP1/RdRp) | 0.0 | 13.8 | 6.8 | 7.0 | 24.4 | 0.0 | 82.8 | 73.3 | 86.4 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 0.0 |
| Seg 2 (VP2/T2) | 0.0 | 9.4 | 0.0 | 7.3 | 0.0 | 8.6 | 98.0 | 65.7 | 93.3 | 99.0 | 99.0 | 98.8 | 99.0 | 99.2 | 99.1 | 17.4 |
| Seg 3 (VP3) | 10.9 | 29.3 | 0.0 | 8.9 | 9.8 | 0.0 | 98.5 | 93.9 | 98.6 | 100.0 | 100.0 | 100.0 | 99.2 | 100.0 | 100.0 | 0.0 |
| Seg 4 (VP4/CaP) | 0.0 | 23.5 | 0.0 | 21.7 | 0.0 | 0.0 | 95.3 | 83.1 | 94.8 | 96.1 | 95.5 | 96.6 | 95.4 | 96.7 | 96.1 | 17.0 |
| Seg 5 (NS1/TuP) | 29.2 | 56.6 | 35.2 | 49.5 | 28.2 | 33.6 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 0.0 |
| Seg 6 (VP5) | 13.8 | 36.9 | 13.0 | 31.1 | 17.5 | 37.2 | 97.9 | 99.5 | 99.4 | 99.4 | 99.4 | 99.4 | 99.6 | 99.4 | 99.4 | 0.0 |
| Seg 7 (NS2/ViP) | 0.0 | 29.5 | 0.0 | 19.5 | 28.5 | 0.0 | 93.4 | 96.0 | 74.5 | 99.7 | 100.0 | 99.7 | 99.7 | 99.7 | 99.6 | 35.0 |
| Seg 8 (VP7/T13) | 0.0 | 36.3 | 0.0 | 78.5 | 36.3 | 0.0 | 97.8 | 66.3 | 87.2 | 98.4 | 100.0 | 100.0 | 100.0 | 100.0 | 100.0 | 19.1 |
| Seg 9 (VP6/Hel) | 0.0 | 39.4 | 20.7 | 23.8 | 27.3 | 19.3 | 95.6 | 80.9 | 97.1 | 96.7 | 97.5 | 97.5 | 97.6 | 97.5 | 97.4 | 0.0 |
| Seg 10 (NS3) | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 62.7 | 81.4 | 45.7 | 91.6 | 93.2 | 90.6 | 91.4 | 96.3 | 93.0 | 0.0 |
The reads in millions represent the number of paired, interleaved reads remaining after quality trimming. The viral reads and contigs represent all viruses in the mosquito pool sample. The number of RRV and UMAV contigs is shown, and what percentage of the virus genome is covered by these contigs.
aRRV genome length = 11,575 bp. bTotal UMAV genome length = 19,318 bp. UMAV segment lengths: Seg 1 = 3,711 bp; Seg 2 = 2,794 bp; Seg 3 = 2,523 bp; Seg 4 = 2,063 bp; Seg 5 = 2,107 bp; Seg 6 = 1,620 bp; Seg 7 = 1,324 bp; Seg 8 = 1,131 bp; Seg 9 = 1,104 bp; Seg 10 = 941 bp.