TABLE 3.
Alignment statistics
| Alignment statistic | Segment | S199 (A) | S200 (B) |
|---|---|---|---|
| % reads mapped to virus | 98.96 | 99.60 | |
| Total no. of reads | 76,327,059 | 73,209,162 | |
| % recombined basesa | 0.013 | 0.008 | |
| No. of reads mapped to viral genome segment |
L1 | 19,484,338 | 16,469,190 |
| L2 | 8,971,901 | 7,223,829 | |
| L3 | 8,540,478 | 7,958,444 | |
| M1 | 4,951,438 | 4,425,385 | |
| M2 | 7,114,085 | 8,009,169 | |
| M3 | 7,501,592 | 9,128,523 | |
| S1 | 5,272,443 | 4,961,923 | |
| S2 | 4,393,207 | 4,603,800 | |
| S3 | 4,557,003 | 4,867,022 | |
| S4 | 4,743,900 | 5,271,611 |
a
Percent recombined bases is the number of nucleotides in all ViReMa-detected junctions divided by the total number of nucleotides mapping to the viral genome segments.