• Align Protein

    Structural alignments (Expresso)

    Combine popular aligners (M-Coffee)

    Transmembrane proteins (PSI/TM-Coffee)

    Homology extension (PSI-Coffee)

  • Align RNA

    Secondary structure (R-Coffee)

    Tertiary structure (SARA-Coffee)

    Combine popular aligners (M-Coffee)

  • Align DNA

    Combine popular aligners (M-Coffee)

    Homologous promoter regions (Pro-coffee)


TCS Evaluates your Alignment and outputs a Colored version indicating the local reliability.   >>  Cite
iRMSD-APDB Evaluates Multiple Sequence Alignment using structural information with APDB and iRMSD.   >>  Cite
T-RMSD Allows fine-grained structural clustering of a given group of related protein domains   >>  Cite
Strike Evaluation of protein MSAs using a single 3D structure   >>  Cite


Advanced Run your alignment using full featured T-Coffee options.   >>  Cite
All All available T-Coffee methods

Useful links

Google Group Support and discussion group
tcoffee.org Find out more about T-Coffee project and documentation
Cedric Notredame Home page, Courses and Blog
Download Sources and binaries are available for download at this link
Twitter Check it out for latest T-Coffee developments and new tips
Facebook T-Coffee has a page on Facebook
ResearchGate Follow the discussion on ResearchGate

Mirror sites

Bioinfo for dummies
The Book Bioinformatics For Dummies contains a T-Coffee tutorial and many other online resources.
Vital-IT Vital-IT, Swiss Institute of Bioinformatics (SIB)
EBI EBI, European Bioinformatics Institute
Max-Planck Institute Max-Planck Institute for Developmental Biology
Cornell Cornell
EMBNet-Spain EMBNet-Spain
Pasteur Institute Pasteur Institute