R2MC20

[maxbiostat]

You might consider using some sequences (e.g. O BFS 1860) as outgroup for your phylogenetic reconstruction and perform a more detailed analysis that would include all your sequences (maybe using a random local clock to account for variability in the rates), therefore shaping the entire tree topology. In addition, the phylogenetic trees, as are presented now, are confusing and really difficult to read.

[maxbiostat]

This is a very helpful suggestion. I will see what I can do on the issue.