I have NGS data of the V4 region of 16s rRNA but I am not aware of the primers used. I'm pretty sure the primer sequences are still in the files because the data is unprocessed, and I was able to remove the primers [of known sequences] for another data set from the same sequencer So wondering if there are tools that can help me figure out what these sequences are so that I can remove them appropriately? I was considering just trimming 20 bp from each end, but would prefer to remove the specific sequences. I have tried to align multiple sequences and see if I can find a common sequence, and I think I have found the reverse but am not confident in the forward..
Question: What can I use to identify primer sequences in my fasta files?
17 months ago by
c.older • 0
c.older • 0 wrote:
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