I am attempting to perform alignments for a variety of FASTQ files. I need the sequences to be the same length, 250 bp. That being said, I do not want to remove sequences that are under 250 bp. The sequence length varies from 66-250. I would like the sequences that are 66 bp in length to be padded or extended to be 250. I have seen this done with the insertion of trailing gaps, however, I would like Ns to be inserted instead.
Please let me know if there are any tools on the Usegalaxy.org server that would successfully complete this. (The Eu server works as well!)
Thank you so much for your time.