Mapping reads to mitochondrial genome

Question

[GA]

I need to map sequencing reads to the Drosophila mitochondrial genome. Does anyone know if I can accomplish this using the STAR aligner? Can the aligner handle circular reference genomes or do I need to specify any options or do any other steps to be able to do this? Does anyone know what is the best method to map reads to a circular reference genome?

Thank you for your help!

[GenoMax]

There is a question about this on forum today: Mapping sequencing reads to circular reference

See the answer there.

Answer 1

[Pierre Lindenbaum]

see the M&M of https://genome.cshlp.org/content/32/3/569.full

Mitochondrial DNA variation across 56,434 individuals in gnomAD