The MEME Suite is a web-based tool for discovering and analyzing sequence motifs, such as DNA binding sites and protein interaction domains. It includes the MEME algorithm for motif discovery and the GLAM2 algorithm for discovering motifs with gaps. The suite also includes tools for searching sequence databases for motifs and for associating motifs with Gene Ontology (GO) terms. The MEME Suite provides a unified web server interface for four types of motif analysis: motif discovery, motif-motif database searching, motif-sequence database searching, and function assignment. The suite includes tools such as TomTom for comparing motifs with known databases, GOMO for associating motifs with GO terms, and FIMO, MAST, and GLAM2SCAN for searching sequence databases for motif occurrences. The MEME Suite is implemented as web services via Opal, and source code, binaries, and a web server are freely available for non-commercial use. The suite supports both DNA and protein motifs, and allows for the analysis of motifs with gaps. The MEME Suite is widely used for motif discovery and analysis in bioinformatics.The MEME Suite is a web-based tool for discovering and analyzing sequence motifs, such as DNA binding sites and protein interaction domains. It includes the MEME algorithm for motif discovery and the GLAM2 algorithm for discovering motifs with gaps. The suite also includes tools for searching sequence databases for motifs and for associating motifs with Gene Ontology (GO) terms. The MEME Suite provides a unified web server interface for four types of motif analysis: motif discovery, motif-motif database searching, motif-sequence database searching, and function assignment. The suite includes tools such as TomTom for comparing motifs with known databases, GOMO for associating motifs with GO terms, and FIMO, MAST, and GLAM2SCAN for searching sequence databases for motif occurrences. The MEME Suite is implemented as web services via Opal, and source code, binaries, and a web server are freely available for non-commercial use. The suite supports both DNA and protein motifs, and allows for the analysis of motifs with gaps. The MEME Suite is widely used for motif discovery and analysis in bioinformatics.