is there a DB for illumina adaptors/contamination?

Question

[blur]

Hi,

trying to figure out of this repetitive seq in my data is a contamination or not: tggggaaatcgcaggggtcagcacatc-cggagtgcaatggataagcctcg any ideas where I can find a DB? (It is not automatically recognized as an illumina adaptor)

Thanks

Answer 1

[SJ Basu]

you can find find all possible adapters and contaminants from Illumina in the "Configuration" folder of FastQC tool (also create a reverse complement of all those adapter sequences and check )

Answer 2

[Benn]

What about NCBI blast db?

Answer 3

[dago]

Maybe previous posts Finding Adapters For Illumina Reads and blogs help

Answer 4

[WouterDeCoster]

According to blast, both are snRNA/ncRNA