Best program to estimate genetic divergences?
I would like to estimate genetic divergence between sister taxa using HKY model. I have 22 different species (11 sister taxa pairs) and am using mitochondrial ND2 marker. I have a total of 135 sequences. Multiple sequences for each species, but sample size varies. Any advice on best program to use?
Thanks in advance!
• 2,223 views
•
link
updated
by
Ram
•
written
by
enrightnm •
•
written
by
enrightnm •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Help with e-utils: Need one assembly accession from one protein accession
written by Morgan S. •
-
running RAxML and MrBayes over concatinated multiple sequence alignments
written by Moses
-
PAML sample sizes within multiple alignment format
written by enrightnm •
-
Estimating genetics distance with python prgram
written by enrightnm •
-
de-novo whole genome assembly and annotation
written by kratiranjan2020 •
-
Ensembl Multiple Genome alignments do not yield the same as pairwise alignments
written by except.for.me.and.my.monkey •
-
How to find historical variations in mutation rate in an epidemic
written by jaynaythan •
-
How to specify a branch in the tree automatically for branch-site model codeml?
written by sckinta
-
Mutations statistics software?
written by lokapal •
-
How To Deal With The Sequence Divergence?
written by spandankeshav •
Hello enrightnm!
It appears that your post has been cross-posted to another site: http://seqanswers.com/forums/showthread.php?p=204952
This is typically not recommended as it runs the risk of annoying people in both communities.
Take a look at MEGA.
Unfortunately MEGA doesn't have the HKY model, but has other models. Thanks though!!