Hi all,
I have attached a pic of the kmer-content of my RNA-seq experiment.
Input was a fastq-file, 51bp reads, over 30 million reads, RNA-seq on an Illumina Hiseq.
At about the 21st position in the reads, I see the AAAAA 5-mer suddenly rising. Does anyone have a clue what might be causing that? I see it in all my samples. RNA samples were collected after arresting translation with cycloheximide.
Could it be that something is wrong with the fragment size? If so, how do I check that??
Thanks a million!
Karel
I have attached a pic of the kmer-content of my RNA-seq experiment.
Input was a fastq-file, 51bp reads, over 30 million reads, RNA-seq on an Illumina Hiseq.
At about the 21st position in the reads, I see the AAAAA 5-mer suddenly rising. Does anyone have a clue what might be causing that? I see it in all my samples. RNA samples were collected after arresting translation with cycloheximide.
Could it be that something is wrong with the fragment size? If so, how do I check that??
Thanks a million!
Karel
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