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Old 02-06-2014, 12:52 PM   #1
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Location: Texas

Join Date: Oct 2012
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Default Strange kmer patterns in FastQC results

I need help in interpreting the fastQC results I have on my sample from paired-end ChIP-seq (151bp long from miseq)

After removing adapter sequences using trim-galore, I am still seeing strange kmer patterns at the 3' end of reverse reads. Does anyone know where these might have originated from, or is it possibly some parameters I've not used in trim-galore?

trim_galore --fastqc -a *adapter_sequence* --paired read_1.fastq read_2.fastq

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