how should i find the correct adapter sequence for use in Cutadapt ?
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Hi @amir
Cutadapt is an older tool wrapper. Try using Trimmomatic instead. It already has the standard Illumina adaptors pre-loaded.
If for some reason Trimmomatic does not find any custom adaptors you may in your data, running FastQC might give clues about what these are. Or, you might need to backtrack and find out how the library was prepared.
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