Meaning of these k-mer diagrams
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20 months ago

Hi! I have paired-end reads from corn that I mapped against the reference genome. I want to assembly the mitochondria genome, so I extracted only the reads that mapped against the mt of the reference. Before the assembly, I did a k-mer analysis of the mt reads and I got this:

Captura-de-pantalla-de-2019-08-05-21-55-53

Considering this is an haploid genome (mt genome), what would this mean? (My teacher told me that it seams I have two mitochondrias, and I somehow see why, but i'm not completely sure)

Also, my teacher told me to do a k-mer analysis of the unmapped reads (to the whole reference genome) and this is what I got:

Captura-de-pantalla-de-2019-08-05-21-52-43

I'm pretty new to this field. Sorry for the dumb questions.

Can someone tell me what does this mean?

Thanks a lot in advance :)

assembly alignment kmer jellyfish • 354 views
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