Hi!
I have made a phylogenetic tree of a few genes from different organisms. How can I interpret the distance scores? What do they actually mean? After some googling I found a suggestion that it may be a measure of the ratio of matches to mismatches in the aligned sequences, but I haven't been able to confirm it.
I made the tree in Jalview using the neighbor joining by percent identity method.
Thanks,
Rasmus
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written
by
rmoenree •
3 answers
This might help? Online course in computational molecular evolution. Seems to have a bunch of phylogeny and neighbour joining. I haven't tried it (it has only just become available), but it might help you.
how calculate genetic distance matrix in neighbor joining for phylogenetic tree
how calculate genetic distance matrix in neighbor joining for phylogenetic tree
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I hope that by "a few genes from different organisms", you mean "the same gene from different organisms". Otherwise, your tree is completely meaningless. I'd also suggest (1) more web searching ("neighbor joining distance" returns lots of informative results) and (2) as suggested in the answer below, finding an online molecular evolution course, so as you understand what you are doing.