We have a tRNA gene in a tRNA cluster within our C1 phage, Roots515, that DNA Master says is for serine but ARAGORN and tRNAscan-SE say is for leucine. Additionally, the anticodon is almost always consistent between ARAGORN and tRNAscan-SE but different in DNA Master. This is our first experience annotating tRNAs but, as you can imagine, we have many to do for our C1 phage! Any advice is most welcome! Thanks.