Created at date Descending 1 10 120 1200 1200 Service - dbfetch dbfetch Dbfetch is an acronym for "database fetch". Dbfetch provides an easy way to retrieve entries from various databases at the EBI in a consistent manner. It can be used from any browser as well as well as within a web-aware scripting tool that uses wget, lynx or similar. All tests were successful for this service 2010-03-09T05:33:32Z 2010-03-08T13:21:57Z Service - SRS@EMBL-EBI SRS@EMBL-EBI The Sequence Retrieval System (SRS) at EMBL-EBI can be used to search and browse various databases and perform analysis using common bioinformatics tools. All tests were successful for this service 2010-03-09T05:33:28Z 2010-03-08T13:14:16Z Service - WSPSISearchService WSPSISearchService PSI-Search, similar to PSI-BLAST, combines the Smith-Waterman search algorithm with the PSI-BLAST profile construction strategy to find distantly related protein sequences. Searches are done with SSEARCH, and the selected hits are combined with BLASTPGP to build a position specific scoring matrix (PSSM), which is then used for another search with SSEARCH in the next iteration. All tests were successful for this service 2010-03-09T05:33:27Z 2010-03-08T12:58:58Z Service - WSPSIBlastService WSPSIBlastService Position Specific Iterative BLAST (PSI-BLAST) is a feature of the NCBI BLAST 2 suite in which a profile is automatically constructed from the first set of BLAST alignments obtained from a search. PSI-BLAST is similar to NCBI BLAST except that it uses position-specific scoring matrices derived during the search, this tool is used to detect distant evolutionary relationships. All tests were successful for this service 2010-03-09T05:33:26Z 2010-03-08T12:56:10Z Service - T-Coffee T-Coffee T-Coffee is a multiple sequence alignment program. The main characteristic of T-Coffee is that it will allow you to combine results obtained with several alignment methods. By default, T-Coffee will compare all you sequences two by two, producing a global alignment and a series of local alignments (using lalign). The program will then combine all these alignments into a multiple alignment. All tests were successful for this service 2010-03-09T05:33:25Z 2010-03-08T10:42:15Z Service - MUSCLE MUSCLE MUSCLE (MUltiple Sequence Comparison by Log-Expectation) is claimed to achieve both better average accuracy and better speed than ClustalW or T-Coffee, depending on the chosen options. Multiple alignments of protein sequences are important in many applications, including phylogenetic tree estimation, secondary structure prediction and critical residue identification. All tests were successful for this service 2010-03-09T05:33:25Z 2010-03-08T10:38:00Z Service - MAFFT MAFFT MAFFT (Multiple Alignment using Fast Fourier Transform) is a high speed multiple sequence alignment program. All tests were successful for this service 2010-03-09T05:33:25Z 2010-03-08T10:34:05Z Service - Kalign Kalign All tests were successful for this service 2010-03-09T05:33:25Z 2010-03-08T10:30:55Z Service - ClustalW 2 ClustalW 2 ClustalW 2 is a general purpose multiple sequence alignment program for DNA or proteins. It produces biologically meaningful multiple sequence alignments of divergent sequences. It calculates the best match for the selected sequences, and lines them up so that the identities, similarities and differences can be seen. All tests were successful for this service 2010-03-09T05:33:25Z 2010-03-08T10:26:15Z Service - WU-BLAST WU-BLAST WU-BLAST stands for Washington University Basic Local Alignment Search Tool. The emphasis of this tool is to find regions of sequence similarity or homology quickly, with minimum loss of sensitivity. This will yield functional and evolutionary clues about the structure and function of your novel sequence. Dr Warren Gish at Washington University released this first "gapped" version of BLAST allowing for gapped alignments and statistics. All tests were successful for this service 2010-03-09T05:33:25Z 2010-03-08T09:59:36Z