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Old 05-05-2016, 06:29 AM   #6
Location: United Kingdom

Join Date: Apr 2016
Posts: 14

No, the reads usually plateau after 60k or so per sample.

I am analyzing fish gut samples.

After v4 sequencing on MiSeq, I get 22m reads for 24 samples. My feeling is that if I sequenced more samples I would have less reads per sample and hence would not be analyzing such a high number?

After filtering and QC, I usually get about 3-500k seqs/sample.

Therefore rarefying to ~300k seqs/sample for analysis.

Hope that explains it?
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