Fast and reliable alternatives to blast After some unexpected results (and previously reported) I heard that there are other tools for finding similar sequences besides blast that are faster and more accurate.

I only found hmmer, but I don't know if it is faster and more accurate.

Is there any review comparing such tools? A quick google scholar search didn't report anything useful.

I want to search with short DNA sequences (~400), mainly interested for taxonomic imputation so I'll be looking for similar sequences and not distant homologs. I won't try to model genes and the sequence will be unspliced as it is from direct sequencing of a a region of the 16S gene.
Besides generic nucleotide aligners, there are also more specialized tools for the alignment of 16S amplicon sequences, e.g. SINA (article, software) which is part of SILVA