Phylogenetics analysis between diverse species Hope everyone is well.

So i was appointed with a task, and i need some guidance. Attention, the one that gave me the task may not have explained this very clearly. I will write what he exactly asked of me, and what he gave me as primary data.

So he gave me 4 bed files (human genome) with chr and coordinates(start/stop), and asked me to do: "sequencing/coordinates conservation between diverse species".

Is that doable with coordinates only or do i need sequences in fasta format (phast uses fasta format)? I just dont understand how i will find "conservation between diverse species" only with coordinates. It seems weird to me.

I have found these programs: TargetOrtho2, Phast and BUSCO(?). Are they any good? Should i continue with one of them that you may have experience with?

Thanks
I second commenter Devon Ryan's suggestion, I'm just going to give a little more detail about how to do that. You can plug the BED files into the UCSC browser following these instructions: https://genome.ucsc.edu/goldenPath/help/customTrack.html

Now you can look at the overlap between your bed tracks (black boxes I believe) and conservation (red box).



Assuming that is all you want to do, that should do it. If you want to do further data analysis or processing, you can download the conservation track as a .wib file from UCSC. You can convert this file to BED as described here, and use BEDTools to analyze it together with your BED of regions of interest.