What % of genome X is aligned?

[npawarut]

**Hello,

I performed a core-genome alignment using Parsnp. However, I would like to assess the reliability of the results. Specifically, I want to determine what percentage of genome X was aligned to the reference genome. How can I obtain this information? Can I find it in the "raxml.out" file? Alternatively, are there other parameters I can review to assess the results?

Thank you.**