generic tool for pairwise sequence comparison


All systems
Debian Debian
apt-get install exonerate
apt-get install exonerate
image/svg+xml Kali Linux
apt-get install exonerate
dnf install exonerate
Windows (WSL2)
sudo apt-get update sudo apt-get install exonerate
apt-get install exonerate


generic tool for pairwise sequence comparison

Exonerate allows you to align sequences using a many alignment models, using either exhaustive dynamic programming, or a variety of heuristics. Much of the functionality of the Wise dynamic programming suite was reimplemented in C for better efficiency. Exonerate is an intrinsic component of the building of the Ensembl genome databases, providing similarity scores between RNA and DNA sequences and thus determining splice variants and coding sequences in general. An In-silico PCR Experiment Simulation System (see the ipcress man page) is packaged with exonerate. This package also comes with a selection of utilities for performing simple manipulations quickly on fasta files beyond 2Gb