mothur

Finding start & end for pcr.seqs

Hi I’m an undergrad intern using mothur for analyzing 16s sequence with primers 515f-806r. How do I find the start & end numbers for the pcr.seqs command?Thank you so much!

Hi,

I usually align wtih the E. coli 16S rRNA seen in Figure 1 of Gutell et al. Microbiological Reviews 1994. The 16S sequence may be added to your sequences to see how the pcr.seqs trim.

Sigmund

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Be sure to check out this tutorial…

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Thanks all! I ended up getting start=10247 and end=25318 :slight_smile:

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