I can’t think of a QIIME 2 method used for evaluating an existing alignment specifically…
however, I think I can answer this:
Yes! See q2-quality-control’s evaluate seqs method. It uses BLAST under the hood to align query sequences against a reference set and report the quality of alignments (or lack thereof). That would be both quick and dirty, and give you a rough idea of how well your query sequences align to the reference (reporting coverage and % id etc).
This action even has an option to visualize the alignments but that’s kind of clunky so I recommend the tabular results (no visualization) if you have a large number of sequences or long sequences.
I hope that helps!