Table 2.
Summary of recombination events identified by the Recombination Detection Program v.4.16 (RDP4)
| Breakpoint position in recombinant sequence | Parental sequence(s) | Score for the six detection methods in RDP4 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Recombinant segment | Begin | End | Minor | Major | RDP | GENECONV | BOOTSCAN | MaxChi | Chimaera | SiSCAN |
| ORF1a | 1 | 2769 | CH/ZMDZY/11 | CV777 | 3.783E−3 | 3.172E−9 | 2.601E−2 | 1.337E−10 | 1.648E−12 | NS |
| S gene | 20,691 | 22,176 | CV777 | DR13 | 3.864E−3 | NS | 1.319E−2 | 2.799E−3 | 2.583E−10 | 1.992E−24 |
| N gene | 27,252 | 28,020 | CH/ZMDZY/11 | CV777 | 1.855E−3 | NS | 2.425E−3 | 1.297E−6 | 2.491E−6 | 1.489E−12 |
The abbreviation “NS” indicates that the recombination event is not significant