European Bioinformatics Institute

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		Clustal Omega A new multiple sequence alignment tool using HMM-HMM profiles, suitable for medium-large alignments.
		EBI Search The EBI Search presents search results that are up-to-date with the data resources and provides an easy inter-domain navigation via a network of cross-references.
		InterProScan InterProScan is a software package that allows users to search their sequences against the InterPro database's predictive protein signatures.
		Clustal Phylogeny Commonly used phylogenetic tree generation methods provided by the ClustalW2 program.
		Ontology Lookup Service OLS provides a unified interface to multiple ontologies on OBO format.
		NCBI BLAST [protein] Fast local similarity search tool for protein sequence databases.

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		CENSOR A tool that screens query sequences against a reference collection of repeats.
		Clustal Omega A new multiple sequence alignment tool using HMM-HMM profiles, suitable for medium-large alignments.
		Clustal Phylogeny Commonly used phylogenetic tree generation methods provided by the ClustalW2 program.
		ClustalW2 Multiple sequence alignment with ClustalW2.
		DbClustal Create a multiple sequence alignment from a protein BLAST result.
		dbfetch Programmatic-style retrieval of entries from EMBL-EBI databases
		Distributed Annotation System (sensu protein sequences) DAS provides client-side integration of protein sequence annotation.
		EBI BioSamples Database A database describing biological samples and providing links to associated experimental data
		EBI Search The EBI Search presents search results that are up-to-date with the data resources and provides an easy inter-domain navigation via a network of cross-references.
		EMBOSS Tools Selected EMBOSS tools for sequence analysis, providing: pairwise sequence alignment, sequence format conversion, sequence translation and back-translation, and sequence statistics.
		Enzyme Portal: Integrated enzyme data from EMBL-EBI resources Integrated functional, sequence, nomenclature, substrate, product and cofactor data for enzymes.
		FASTA [nucleotide] Similarity search tool for nucleotide sequence databases.
		FASTA [protein] Similarity search tool for protein sequence databases.
		FASTM [nucleotide] Nucleotide fragment similarity search tool
		FASTM [protein] Peptide fragment similarity search tool
		FingerPRINTScan Search PRINTS with a protein query sequence.
		GeneWise Compare a protein sequence to a genomic DNA sequence.
		GGSEARCH [nucleotide] Optimal global similarity search tool to search nucleotide databases for sequences homologous to your query.
		GGSEARCH [protein] Optimal global similarity search tool to search protein databases for sequences homologous to your query.
		GLSEARCH [nucleotide] Optimal global-query, local-database, similarity search tool to search nucleotide databases for sequences homologous to your query.
		GLSEARCH [protein] Optimal global-query, local-database, similarity search tool to search protein databases for sequences homologous to your query.
		InterProScan InterProScan is a software package that allows users to search their sequences against the InterPro database's predictive protein signatures.
		Kalign Very fast multiple sequence alignment tool, suitable for large alignments.
		LALIGN [nucleotide] LALIGN finds internal duplications by calculating non-intersecting local alignments of protein or nucleotide sequences.
		LALIGN [protein] LALIGN finds internal duplications by calculating non-intersecting local alignments of protein or nucleotide sequences.
		MAFFT Multiple sequence alignment tool that uses Fast Fourier Transforms, suitable for medium alignments.
		MaxSprout MaxSprout generates protein backbone and side chain co-ordinates from a C(alpha) trace.
		MUSCLE Accurate multiple sequence alignment tool, especially good with proteins. Suitable for medium alignments.
		MView Transform a sequence similarity search result into a multiple sequence alignment or reformat a multiple sequence alignment.
		NCBI BLAST [nucleotide] Fast local similarity search tool for nucleotide sequence databases.
		NCBI BLAST [protein] Fast local similarity search tool for protein sequence databases.
		Ontology Lookup Service OLS provides a unified interface to multiple ontologies on OBO format.
		Phobius Tool to predict transmembrane topology and signal peptides from the amino acid sequence of a protein.
		PICR: The Protein Identifier Cross-Reference Service Provides web services for mapping between protein identifier namespaces.
		Pratt - Pattern Matching Discover patterns in unaligned protein sequences.
		PromoterWise PromoterWise compares two DNA sequences allowing for inversions and translocations, ideal for promoters.
		PROSITE Scan Search a protein query sequence for protein motifs using the patterns and profiles in PROSITE.
		PSI-BLAST Fast iterative motif-based similarity search tool for proteins
		PSI-Search Highly accurate iterative motif-based similarity search tool for proteins.
		RADAR Rapid Automatic Detection and Alignment of Repeats in protein sequences
		Readseq Conversion between common biological sequence formats.
		SAPS - Statistical Analysis of Protein Sequences Evaluate a wide variety of protein sequence properties
		Sequence Checksum Generator Generation of checksums for protein and nucleotide sequences.
		SRS - Sequence Retrieval System Advanced querying of EMBL-EBI databases.
		SSEARCH [nucleotide] Smith-Waterman sequence similarity search against nucleotide databases.
		SSEARCH [protein] Smith-Waterman sequence similarity search against protein databases.
		T-Coffee Consistency-based multiple sequence alignment tool that attempts to mitigate the pitfalls of progressive alignment methods. Suitable for small alignments.
		Web Services Programmatic access to various data resources and analysis tools via Web Services technologies.
		WU-BLAST [nucleotide] Sequence similarity search of nucleotide databases using WU-BLAST.
		WU-BLAST [protein] Sequence similarity search of protein databases with WU-BLAST.

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