Too many unique sequences

1

Hello,

I just wanted to know how many unique sequences are “too many”. I am using some data of my own now, and I have 2 million unique sequences. Of course, this is causing troubles with the following OTU analysis, basically I so not have enough space in my drive to store 300 + GB of data. Any clue why I would have so many unique sequences? I did all the pre processing following the SOP before getting to the OTU section. In advance, thanks!

Elliston

2

What region are you sequencing and what chemistry are you using? What was the % reads passing filter?

3

I am using the 16S V4 region. It was a MiSeq Illumina run, 2x250. %Q>30 for Read 1 = 86.55. %>Q30 for read 2 = 65.64.

4

Hey Elliston,

That second read looks pretty poor. You might want to follow up with your sequencing provider and see if they can’t get you better data.

Pat