Hi all,
I need advice on my Illumina paired-end rna-seq data. An extremely high percent (40%) of the alignments are on an unknown chromosome (chrUn_gl*). This region is annotated as "uncharacterized non-coding RNA". I have two samples from two different conditions, and I can see this for both samples. The percentage of bases covering rRNA is roughly 0.02%.
Could someone tell me if this means that there is a contamination in my sample. If so, what could be the reason for this. I'd be very thankful for any hints on what to look for.
Thanks in advance!
I need advice on my Illumina paired-end rna-seq data. An extremely high percent (40%) of the alignments are on an unknown chromosome (chrUn_gl*). This region is annotated as "uncharacterized non-coding RNA". I have two samples from two different conditions, and I can see this for both samples. The percentage of bases covering rRNA is roughly 0.02%.
Could someone tell me if this means that there is a contamination in my sample. If so, what could be the reason for this. I'd be very thankful for any hints on what to look for.
Thanks in advance!
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