FastQC results for 16s reads

[MiniMicrobe]

Hi

I have some FastQC results I have generated from Illumina 16s sequences. I have attached an example of the results for one of the demultiplexed fastq files, but they all look simillar.

I think that the per base quality score looks ok but I am not sure about the other statistics. I have only worked with WGS data before and I haven't been able to find any information on if these are normal.

Any information/links to resources on if these look ok would be really helpful.

Thanks
Michelle

[mastal]

I think they look OK. The thing with 16S reads is that they are amplicons, and that all the
sequences are very similar.

I had seen a document on the website of an Italian company named IGATech some months ago,
which showed typical FastQC plots for 16S data, and improved plots with their method,
which I think involved some type of heterogeneity spacers, but I can't find it now.

https://igatechnology.com

[MiniMicrobe]

Hi Mastal

Thanks for the reply. I thought that might be the case, I'm just trying to understand the data better.

I managed to find a bit of a tutorial about this too.

https://monsterbashseq.wordpress.com/2014/01/15/workshop-on-genomics-notes-day-3-sequence-data-quality-control/