Table 1. Summary of the total variants for each gene segment before and after background filtering and pairwise comparison between high-throughput sequencing- (HTS-) and Sanger-derived full-length sequences.
| Segment/Gene /Length | Background filtering |
|
|||||||
|---|---|---|---|---|---|---|---|---|---|
| Before | After | Pairwise sequence comparison between HTS and Sanger |
|||||||
| Total variants (minor + absolute) /No. of sequences | Total variants (minor + absolute) /No. of sequences | Total sequences compared | Total minor variants found by HTS after filtering /No. of HTS sequences | Total minor variants found by Sanger /No. of Sanger sequences | No. of fully concordant sequences | Total additional minor variants found by HTS /No. of sequences | Total homogeneous variants compared to Sanger method after filtering /No. of sequences | Total homogeneous variants correctly identified by HTS after re-visiting Sanger chromatogram/No. of sequences | |
| 1/PB2/2341nt | 2968/148 | 2511/130 | 129 | 403/129 | 133/129 | 53 (41%) | 270/75 | 0/0 | 0 |
| 2/PB1/2341nt | 3035/148 | 2532/130 | 130 | 377/128 | 132/130 | 60 (46%) | 247/65 | 9/8 | 2/2 |
| 3/PA/2233nt | 2956/148 | 2641/136 | 135 | 513/136 | 138/135 | 49 (36%) | 374/83 | 6/5 | 4/3 |
| 4/HA/1762nt | 2016/148 | 1860/138 | 138 | 175/136 | 140/137 | 105 (76%) | 37//30 | 3/3 | 1/1 |
| 5/NP/1566nt | 1949/148 | 1839142 | 142 | 172/138 | 147/142 | 112 (79%) | 32/26 | 7/5 | 4/2 |
| 6/NA/1467nt | 1748/148 | 1638/140 | 140 | 173/138 | 144/140 | 115 (82%) | 32/21 | 4/4 | 2/2 |
| 7/MP/1027nt | 1206/148 | 1155/142 | 142 | 163/142 | 146/142 | 126 (89%) | 18/15 | 1/1 | 1/1 |
| 8/NS/890nt | 1114/148 | 1069/143 | 143 | 175/140 | 150/143 | 117 (82%) | 28/22 | 4/4 | 1/1 |