Oligo Sequences
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Illumina HiSeqIllumina
rRNA bacterial gene and ITS fungal metagenomics primers
Blunt-end ligation with PCR addition of indexes
Some simple commands to use to search for adaptor-dimers:
In Illumina data:
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grep -c GATCGGAAGA <filename.fastq>
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...
For small-rna library/single stranded RNA library, The previous command will work for read 1. For read 2, use something like:
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grep -c ATCGTCGGAC <filename.fastq>
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