Artemis is a DNA sequence visualization and annotation tool that allows the results of any analysis or set of analyses to be viewed in the context of the sequence and its six-frame translation. It is especially useful for analyzing the compact genomes of bacteria, archaea, and lower eukaryotes, and can handle sequences of any size, from small genes to whole genomes. Artemis is implemented in Java and can run on any suitable platform. It supports reading and writing sequences and annotations in EMBL, GenBank, and GFF formats. Artemis is available under the GNU General Public License from http://www.sanger.ac.uk/Software/Artemis. It is used extensively in laboratories for annotating bacterial and lower eukaryotic genomes, including the complete genomes of Campylobacter jejuni and Neisseria meningitidis, and the chromosomes of Plasmodium falciparum. Artemis was developed from the concepts of DIANA, previously used at the MRC-LMB and the Sanger Centre for sequence analysis. Artemis can be used as a sequence viewer on any platform running Java and allows visualization of sequence and annotation from EMBL and GenBank files. It can plot various sequence properties, such as G+C content, G/C skew, frame-specific G+C content, and codon usage, against the sequence and its features. The sequence and plots can be zoomed in or out. Two sequence windows allow viewing the same sequence at different zoom levels. Properties of individual protein features, such as hydrophobicity and hydrophilicity, can also be viewed. Artemis can be run as a WWW applet for interactive web-based sequence and annotation viewing. Artemis is specifically designed as an annotation tool. It can parse results from external analysis programs into the correct format and overlay them on the sequence. These features can be modified and moved between files to build a single annotation table. External programs like FASTA and BLAST can be run on individual features, and results viewed within Artemis. Qualifiers can be edited directly, and users can add custom qualifiers. Artemis is designed to be as portable as possible and supports a wide variety of analyses without built-in complex algorithms. Sample parsing scripts for commonly used programs are available.Artemis is a DNA sequence visualization and annotation tool that allows the results of any analysis or set of analyses to be viewed in the context of the sequence and its six-frame translation. It is especially useful for analyzing the compact genomes of bacteria, archaea, and lower eukaryotes, and can handle sequences of any size, from small genes to whole genomes. Artemis is implemented in Java and can run on any suitable platform. It supports reading and writing sequences and annotations in EMBL, GenBank, and GFF formats. Artemis is available under the GNU General Public License from http://www.sanger.ac.uk/Software/Artemis. It is used extensively in laboratories for annotating bacterial and lower eukaryotic genomes, including the complete genomes of Campylobacter jejuni and Neisseria meningitidis, and the chromosomes of Plasmodium falciparum. Artemis was developed from the concepts of DIANA, previously used at the MRC-LMB and the Sanger Centre for sequence analysis. Artemis can be used as a sequence viewer on any platform running Java and allows visualization of sequence and annotation from EMBL and GenBank files. It can plot various sequence properties, such as G+C content, G/C skew, frame-specific G+C content, and codon usage, against the sequence and its features. The sequence and plots can be zoomed in or out. Two sequence windows allow viewing the same sequence at different zoom levels. Properties of individual protein features, such as hydrophobicity and hydrophilicity, can also be viewed. Artemis can be run as a WWW applet for interactive web-based sequence and annotation viewing. Artemis is specifically designed as an annotation tool. It can parse results from external analysis programs into the correct format and overlay them on the sequence. These features can be modified and moved between files to build a single annotation table. External programs like FASTA and BLAST can be run on individual features, and results viewed within Artemis. Qualifiers can be edited directly, and users can add custom qualifiers. Artemis is designed to be as portable as possible and supports a wide variety of analyses without built-in complex algorithms. Sample parsing scripts for commonly used programs are available.