PolyA in FastQC results from EM-Seq?

Question

[Watermelon]

Hello all,

I received the first EM-seq data for our samples and especially R2 have polyA sequences in the file according to FastQC results. I'm not familiar with why this could occur and the sequencing company had no answer for me. I'm hoping someone can shed a light?

Also, if you could recommend how to trim these, I would very much appreciate it. I was thinking of using TrimGalore -a2 A{20}. Would I also need to trim R1's in the same way?