How to extract hypervariable region of mitochondrial dna from its fasta file?

Question

[iamakhilverma]

Recently I've done some analysis on mitochondrial DNA and now I want to run the same analysis on only hypervariable regions of mitochondrial DNA to see whether the changes that I have observed are linked to only hypervariable regions or not. To do that, I'll need to make new fasta files from the mitochondrial DNA entries that I have and I want to know how to extract those. Any leads will be appreciated.

[natasha.sernova]

There are several hypervariable regions in mtDNA, I know about at least two of them.

There is a kit to extract them

https://norgenbiotek.com/sites/default/files/resources/Mitochondrial-DNA-Hypervariable-Region-I-and%20II-Insert-PI52800-1.pdf

See this article, it may help you.

mtDNA Variation and Analysis Using MITOMAP and MITOMASTER

Marie T. Lott, Jeremy N. Leipzig, Olga Derbeneva, H. Michael Xie et al.

https://www.researchgate.net/publication/259891715_mtDNA_Variation_and_Analysis_Using_Mitomap_and_Mitomaster/link/59dce5750f7e9b2120321a9e/download

Also see the post below, and you may try to determine it by yourself.

A: Heteroplasmy detection program