Table 1 The results of the Φ recombination test carried out for gene and whole genome sequences of Wuhan SARS-CoV-2, RaTG13, GD Pangolin 1 CoV, GD Pangolin P2S CoV, bat CoV ZC45 and bat CoV ZXC21
Region | Φ-test result (p-value) | Recombination detected (yes/no) | Window size |
|---|---|---|---|
Gene ORF1ab | 2.23 × 10–3 | Yes | 150 |
RB domain | Too short | – |  |
Gene S | 8.60 × 10–3 | Yes | 200 |
Gene ORF3a | 1.13 × 10–5 | Yes | 100 |
Gene E | 0.56 | No | 200 |
Gene M | 0.226 | No | 100 |
Gene ORF6 | Too short | – |  |
Gene ORF7a | 0.00155 | Yes | 200 |
Gene ORF7b | Too short | – |  |
Gene ORF8 | 0.0453 | Yes | 200 |
Gene N | 0.024 | Yes | 50 |
Gene ORF10 | Too short | – |  |
Whole genomes | 0.0156 | Yes | 200 |