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Old 02-04-2018, 11:59 PM   #3
Junior Member
Location: France

Join Date: Jan 2018
Posts: 4

Hi Seb,

I see your point, but not all my low coverage contigs have a hit. The ones that do don't have the exact same hit, and the hits are not very good (the largest contig matching another species matches with an identity of 90%, but on only 63% cover, the next contig has identity of 78% on only 21%)

On the 30 largest contigs which I tested, 10 were matching another species (but these were not very good matches, and not always the same species), and 9 were not matching anything. All these 19 contigs had low coverage (around 1). Contigs with high coverage (>200) were matching my species of interest with good hits.
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