Hi all (first post here)!
I am performing my first RNA-seq analysis (prokaryote, 50bp SE) from an Illumina TruSeq library that was sequenced on a Hiseq 2000. The FastQC is showing great read quality, but I have a few concerns that I am having difficulty interpreting.
Should I be concerned about these kmer charts? There are about 30 sharply overrepresented sequences for any given sample. I have attached one sample's duplication levels graphic— it is representative of the others.
Thank you in advance for any thoughts you can offer; I will report back if I have a moment of clarity.
I am performing my first RNA-seq analysis (prokaryote, 50bp SE) from an Illumina TruSeq library that was sequenced on a Hiseq 2000. The FastQC is showing great read quality, but I have a few concerns that I am having difficulty interpreting.
Should I be concerned about these kmer charts? There are about 30 sharply overrepresented sequences for any given sample. I have attached one sample's duplication levels graphic— it is representative of the others.
Thank you in advance for any thoughts you can offer; I will report back if I have a moment of clarity.
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