Question: Genome assembly, de-novo, less query coverage
gravatar for chullijoby
5.3 years ago by
chullijoby0 wrote:

Dear Sir/Madam,

I have single end data (Ion Torrent) and de novo assembly performed with MIRA (660 contigs) and SPADES (753 contigs). I just blasted few contigs it showed very less query coverage (17% of 63000 bp) and comparatively less identity (81%). Also performed reference assembly. Only 3% of the total reads aligned to the reference genome.

1. Why query coverage is very less?

2.Why less identity?

Thanks and Regards



blast next-gen forum assembly • 1.8k views
ADD COMMENTlink modified 5.3 years ago by Istvan Albert ♦♦ 85k • written 5.3 years ago by chullijoby0
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