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Performs multiple sequence alignments

Tutorial and training materials by OpenHelix

Learn to use the ClustalW2 resource at the EBI Toolbox site for performing multiple sequence alignments, or MSA. MSA allow us to analyze the evolutionary relationship between species on a molecular sequence level. As well, multiple sequence alignments can help us to identify functionally important positions in a sequence family by simply looking at the conservation of positions or motifs within the sequence data.
Download the example data file by clicking here.
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You'll learn:

  • some background and theory for multiple sequence alignments
  • how to conduct sequence alignments using
  • to understand and adjust the results of ClustalW2 alignments


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Recent BioMed Central research articles citing this resource

Peng Qin et al., Genomic characteristics and comparative genomics analysis of Penicillium chrysogenum KF-25 Eukaryote microbial genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-144

Dong Wen-Ge et al., Fragmented mitochondrial genomes of the rat lice, Polyplax asiatica and Polyplax spinulosa : intra-genus variation in fragmentation pattern and a possible link between the extent of fragmentation and the length of life cycle Comparative and evolutionary genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-44

Dutheil Y Julien et al., MafFilter: a highly flexible and extensible multiple genome alignment files processor Comparative and evolutionary genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-53

Haarr Lars et al., Stability of glycoprotein gene sequences of herpes simplex virus type 2 from primary to recurrent human infection, and diversity of the sequences among patients attending an STD clinic Viral diseases. BMC Infectious Diseases (2014) doi:10.1186/1471-2334-14-63

Cheng Mei-Ling et al., Functional characterization of the N-terminal and C-terminal domains of a sesame group II phytocystatin Molecular Biology. Botanical Studies (2014) doi:10.1186/1999-3110-55-18

More about the resource:

ClustalW2 web-based interface featured in this tutorial is provided by the European Bioinformatics Institute (EBI). The Clustal program was originally published by Thompson et al from Toby Gibson’s group in 1994, and was later updated by Larkin et al. ClustalW can be downloaded as source code or as binaries for various operating systems at www.clustal.org, provided by the Conway Institute at the University College of Dublin.


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