To our users Please note that the HCV database site is no longer funded. We try to keep the database updated and the tools running, but unfortunately, we cannot guarantee we can provide help for using this site. Data won't be manually curated either.
Purpose: PrimAlign will generate an alignment of your nucleotide sequence against our curated sequence alignment.
Details: This tool can be used to align primers, functional domains, or any nucleotide sequence of interest. To perform such an analysis using protein sequences, see Epilign.
Input should consist of a single nucleotide sequence. The output you receive will include a map of the reference genome with your sequence plotted, a summary of the changes in your sequence relative to each of the alignment sequences, a display of the alignment of your sequence, and an option to download the alignment.