Hello!
There is a divergence between the similarity plot generated by SimPlot++ and the result of PHI test. The plot shows a pure subtype B for my query sequence. However, the PHI test result is below 0.05, indicating that there is a recombination. In another case, the plot shows a recombination between B and F1 subtypes, but the the PHI test result is higher than 0.05. Should I use the PHI test to detect intersubtype recombination?
Hello!
There is a divergence between the similarity plot generated by SimPlot++ and the result of PHI test. The plot shows a pure subtype B for my query sequence. However, the PHI test result is below 0.05, indicating that there is a recombination. In another case, the plot shows a recombination between B and F1 subtypes, but the the PHI test result is higher than 0.05. Should I use the PHI test to detect intersubtype recombination?