It could also be rRNA; what does the GC plot (per sequence GC content) look like?
-
-
The problem that you describe in the first few bases is often seen with RNA-Seq data,
and is thought to be due to the random priming being not so random in practice.
This has previously been disussed in various threads, one of which is here:
The trimmomatic adapter trimming only trims adapter sequences from the 3' ends of the reads.Comment
-
Thanks for all the answers!!! and the link
sarvidsson: The GC plot looks terrible there are 3 peaks in the reads is not a normal distribution.Comment
-
Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...
Comment