how to calculate genome coding density
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4.2 years ago
bsp017 ▴ 30

Hi all,

I have just calculated gene coding desnsity across some bacterial genomes. It is coming out quite high at ~87%, I think it is usually around 80%. I simply counted the ATGC's in my .ffn file and subtracted that from the total nucleotide count.

When calculating coding density should I include ribosomal DNA sequences? I also counted the entire gene region, not just the coding domain. Maybe this is why it is coming out higher?

Thanks,

James

Assembly genome rRNA • 2.4k views
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