TABLE 2 .
Within-host variants identified by deep sequencinga
| Sample | Variant | Frequency |
|---|---|---|
| WSPHL1 | NS1-G47S | 0.042 |
| WSPHL3 | HA-D513Y | 0.035 |
| WSPHL4 | NA-E83K | 0.32 |
| WSPHL4 | PB2-E40G | 0.035 |
| WSPHL4 | PB2-R175K | 0.042 |
| WSPHL4 | HA-E325K | 0.06 |
| WSPHL6 | PB1-M372I | 0.038 |
| WSPHL6 | PB1-H562Y | 0.059 |
| WSPHL7 | PB1-F254F | 0.34 |
| WSPHL7 | PA-P238P | 0.119 |
| WSPHL7 | HA-I202V | 0.115 |
| WSPHL7 | NP-P419P | 0.268 |
| WSPHL8 | NA-F42F | 0.153 |
| WSPHL8 | NA-N86T | 0.204 |
| WSPHL8 | PB2-M631V | 0.061 |
| WSPHL8 | PB1-I392M | 0.079 |
| WSPHL8 | HA-R208S | 0.081 |
| WSPHL8 | HA-A425A | 0.161 |
| WSPHL9 | PB1-N518N | 0.248 |
| WSPHL9 | PB1-E731E | 0.21 |
a
Sites were called as variable if a nonconsensus base exceeded a frequency of 0.03, given a sequencing coverage of at least 100×, in both sequencing replicates.