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Old 12-04-2015, 02:58 AM   #4
colindaven
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Location: Germany

Join Date: Oct 2008
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Seems quite good to me.

In the past samples from human/plants only had viral loads way below 5%. I'd say about 0.1 % or less is more likely if you don't do purification.

There will always be huge contamination in whichever habitat you are trying to sequence viruses in, since they are low copy number with tiny genomes.

The bacterial DNA you sequenced might well be remnants i.e. non-living bacteria which just didn't get filtered out.

If you are just doing 2x150 MiSEq you can go to HiSeq 2x150 or 2x250 using future samples to get more data from the 5% viruses you have.
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