High G and low A,C,T content in the 1-10bp of Read2 file in a paired-end whole genome bisulfite sequencing, why?
Hi there!
I'm new to bisulfite sequencing. Recently received my paired-end WGBS raw file. The Read1 looks OK after fastQC, but the Read2 file has a waired 'Per base sequence content' figure:
The Q value of each file is high (>30). They all passed fastQC adapter content test.
Fq file starts with @AXXX..I know that
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