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Bruce E 03-07-2011 10:16 AM

Fastqc sequence duplication levels
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Our informatics group recently started to use fastqc. I am seeing high (70%) sequence duplication for TruSeq mRNA-Seq libraries. These are from a single lane of a 51 bp read on Illumina's HiSeq 2000. I also see ~30-40% duplicates from a exon cature run. Is this normal? I am concerned that it is way too high.

whybiocc 07-29-2011 08:13 AM

There is a blog which explains the fastQC duplicate graph, i think it may answer your question.

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