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T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension
Open accessAbstract
This article introduces a new interface for T-Coffee, a consistency-based multiple sequence alignment program. This interface provides an easy and intuitive access to the most popular functionality of the package. These include the default T-Coffee mode for protein and nucleic acid sequences, the M-Coffee mode that allows combining the output of any other aligners, and template-based modes of T-Coffee that deliver high accuracy alignments while using structural or homology derived templates. These three available template modes are Expresso for the alignment of protein with a known 3D-Structure, R-Coffee to align RNA sequences with conserved secondary structures and PSI-Coffee to accurately align distantly related sequences using homology extension. The new server benefits from recent improvements of the T-Coffee algorithm and can align up to 150 sequences as long as 10,000 residues and is available from both http://www.tcoffee.org and its main mirror http://tcoffee.crg.cat.
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Alignment Uncertainty and Genomic Analysis
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Metadata
- Authors
- Di Tommaso, P., Moretti, S., Xenarios, I., Orobitg, M., Montanyola, A., Chang, J.-M., Taly, J.-F., & Notredame, C.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2011-05-09
- Volume
- 39
- Issue
- suppl
- Pages
- W13-W17
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2117484859
- Cited by
- 1,165
- References
- 1
- FWCI
- 19.75
- Type
- journal article
- Language
- en
- Open access
- gold
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