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I have an dataset of fasta sequences. This proteins are not complete (My sequences have 700 nucleotides,while complete sequences have 1725 nucleotides)I would like to know if i can make an population genetic analysis from it(like TAJIMA-D test) and similars.

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  • $\begingroup$ I think it is worth noting, mRNA expression does not equal protein expression. $\endgroup$
    – Andrew
    Aug 5, 2020 at 12:44
  • $\begingroup$ If the sequences come from (approximately) the same part of the gene, i.e., if they can be meaningfully aligned, in order to build phylogeny. $\endgroup$ Dec 4, 2020 at 14:18

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It very much depends upon what type of analysis you want to perform. For a Tajima's D, all you would need is a single nucleotide sequences in a sample of individuals, so yes you can. Whether or not the sequence came from a gene or any other sequence is not relevant to whether you can compute Tajima's D (although the type of sequence will likely affect the resulting D).

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