Multiple Sequence Alignments

Resources for generating multiple sequence alignments from sets of sequences.

Found 84 links

Displaying 15 links

aLeavesTool Content

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aLeaves web server supports homolog collection from diverse animal genomes. An input sequence is passed through the server to collect similar sequences for molecular phylogenetic analysis.

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ALGGENTool Content

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ALLGEN server provides various tools for multiple sequence alignments, clustering, and assembly of ESTs. It also includes search tools for transcription factor binding sites (TFBS), repeated patterns, and transposons.

Align-GVGDTool Content

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Align-GVGD is a freely available, web-based program that combines the biophysical characteristics of amino acids and protein multiple sequence alignments to predict where missense substitutions in genes of interest fall in a spectrum from enriched delterious to enriched neutral. Align-GVGD is an extension of the original Grantham difference to multiple sequence alignments and true simultaneous multiple comparisons.

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Align-mTool Content

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Align-m is an accurate and highly versatile multiple alignment program. It consists of 3 modules, S2P, P2P and P2M (see figure, manual), which can be used separately or consecutively to accomplish several tasks.

ALTERTool Content

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ALTER is a program-oriented web tool for the conversion between DNA and protein alignments.

This content is being maintained by lipido.

antiSMASH 2.0Tool Content

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The antibiotic and Secondary Metabolite Analysis Shell (antiSMASH) is a resource for identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. antiSMASH 2.0 now supports input of multiple related sequences simultaneously.

Berkeley Phylogenomics GroupTool Content

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The Berkeley Phylogenomics Group provides a series of web servers for phylogenomic analysis: classification of sequences to pre-computed families and subfamilies using the PhyloFacts Phylogenomic Encyclopedia, FlowerPower clustering of proteins sharing the same domain architecture, MUSCLE multiple sequence alignment, SATCHMO simultaneous alignment and tree construction, and SCI-PHY subfamily identification.

This content is being maintained by kimmen.

Bioinformatics ToolkitTool Content

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This Toolkit is a collection of a wide range of tools and links for sequence analysis, function, and structure prediction. This resource offers convienent web interfaces for many freely available tools.

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CARNATool Content

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CARNA is a web tool for multiple alignment of RNA molecules. CARNA requires only the RNA sequences as input and will compute base pair probability matrices and align the sequences based on their full ensembles of structures. Alternatively, you can also provide base pair probability matrices or FASTA alignments for your sequences.

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TitlePublication YearGoogle Scholar Citation Count
CARNA--alignment of RNA structure ensembles.20120

ChinookTool Content

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Chinook is a peer-to-peer (P2P) service for the discovery, use and assessment of bioinformatics programs. Chinook Online allows researchers to connect and run distributed bioinformatics programs using a web application.

ClustalXTool Content

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Clustal X is a version of the Clustal W multiple sequence alignment program with a graphical interface. The display colours allow conserved features to be highlighted for easy viewing in the alignment. It is available for several platforms, including Windows, Macintosh PowerMac, Linux and Solaris.

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