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ndierckx / NOVOPlasty

NOVOPlasty - The organelle assembler and heteroplasmy caller
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Asterisk in middle of sequence #172

Open Toral-Manvar opened 3 years ago

Toral-Manvar commented 3 years ago

Hi Nicolas,

Sorry if this sounds very basic, but can you tell what asterisk mean in middle of circularized and non-circularized assembly sequence?

Thanks

ndierckx commented 3 years ago

Hi,

It is explained in the github wiki, it means the nucleotide before is a possible deletion. You should remove asterisks from the sequence. But if you align the reads back to your assembly, you could inspect that position. It can be from heteroplasmy, duplicated region but often from SNR region where illumina has low quality reads

Toral-Manvar commented 3 years ago

Sorry I had not checked the wiki page. Thank you for the reply.