Flowchart of the FastAnnotator pipeline. After users upload sequences to the FastAnnotator server, three different processes, LAST-Blast2GO, PRIAM and domain identification, are executed to determine the gene ontology, enzyme and domain annotation of the submitted sequences. We implemented these three processes in parallel to accelerate the annotation procedure. After all of these annotation programs are completed, FastAnnotator presents GO terms, the best hits in the nr database, enzyme annotations and domain annotations together with a statistical report on the website. In addition to exploring the annotation results online, users can also download all of the annotation results as a zip file.