The MEME Suite

Nucleic Acids Res. 2015 Jul 1;43(W1):W39-49. doi: 10.1093/nar/gkv416. Epub 2015 May 7.


The MEME Suite is a powerful, integrated set of web-based tools for studying sequence motifs in proteins, DNA and RNA. Such motifs encode many biological functions, and their detection and characterization is important in the study of molecular interactions in the cell, including the regulation of gene expression. Since the previous description of the MEME Suite in the 2009 Nucleic Acids Research Web Server Issue, we have added six new tools. Here we describe the capabilities of all the tools within the suite, give advice on their best use and provide several case studies to illustrate how to combine the results of various MEME Suite tools for successful motif-based analyses. The MEME Suite is freely available for academic use at, and source code is also available for download and local installation.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Amino Acid Motifs*
  • DNA / chemistry
  • Internet
  • Nucleotide Motifs*
  • Plasmodium falciparum
  • Protein Interaction Domains and Motifs
  • Protein Sorting Signals
  • Protozoan Proteins / chemistry
  • Receptors, Calcitriol / chemistry
  • Sequence Analysis, DNA
  • Sequence Analysis, Protein
  • Sequence Analysis, RNA
  • Software*


  • Protein Sorting Signals
  • Protozoan Proteins
  • Receptors, Calcitriol
  • DNA