Question: Trim Galore version - Adapter sequence
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gravatar for gupta
6 months ago by
gupta20
gupta20 wrote:

Hello,

I have been using Galaxy's Trim galore for clipping adapters from Illumina small RNA sequences. While using automatic adapter detection, I noticed that the adapter being removed is 'ATGGAATTCTCG'. However, in Trim galore's change log from 2015 it is mentioned:


12-11-15: Version 0.4.1 released: Essential update for smallRNA libraries!

Changed the Illumina small RNA sequence used for auto-detection to 'TGGAATTCTCGG' (from formerly 'ATGGAATTCTCG'). The reason for this is that smallRNA libraries have ssRNA adapters ligated to their -OH end, a signature of dicer cleavage, so there is no A-tailing involved.


Can this be please corrected? Meanwhile, is it fine if we perform 'user defined adapter trimming' by providing the sequence 'TGGAATTCTCGG' manually?

Thank you. PG

ADD COMMENTlink modified 6 months ago • written 6 months ago by gupta20
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