Per sequence GC content failed in Human RNA-seq Data

Question

[tahseen.abbas]

Hi,

I am analyzing Human RNA-Seq data for which i initially did FastQC.Majority of my samples failed Per sequence GC content in FASTQC post trimming also (I haven't trimmed my sequences,just gave the adapter sequences while doing trimmomatic). I also checked my bad samples using FASTQ_Screen that maps reads against various species databases (mouse,rat,fungi,bacteria,rRNA) to find out if there is any contamination in my reads but i couldn't find so.

Any suggestions regarding this?

Thanks Tahseen

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[ATpoint]

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[lieven.sterck]

is it a normal, ribo-depleted total RNA sample or something more exotic? (eg. amplicon, exome, or such )