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361. BLAST Frequently Asked Questions (FAQ)
... Why do I see a string of "X"s (or "N"s) in my query sequence that I did not put there? ... BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs designed to explore all of the available sequence databases regardless of whether the query is protein or DNA. ... Filters are used to remove low-complexity sequence because it can cause artifactual hits (please see Q: After running a search why do I see a string of "X"s (or "N"s) in my query sequence that I did not put there? ...
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Ссылки http://www.genebee.msu.ru/blast/blast_faqs.html -- 11.2 Кб -- 31.05.1999
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362. BLAST 2.0 Release Notes
... Blast Family of Programs . ... Blast Query Format . ... Release History . ... A nucleotide or protein sequence sent to the BLAST server is compared against databases at the NCBI and a summary of matches is returned to the user. ... The BLAST 2.0 release has significant differences from the BLAST 1.4 release. ... A number of databases are also available. ... The statistics are based on the 'virtual' database. -i Query File [File In] default = stdin The query should be in FASTA format. ...
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Ссылки http://www.genebee.msu.ru/blast/newblast.html -- 28.2 Кб -- 31.05.1999
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363. FASTA format description
... It is recommended that all lines of text be shorter than 80 characters in length. An example sequence in FASTA . ... Sequences are expected to be represented in the standard IUB/IUPAC amino acid and nucleic acid codes, with these exceptions: lower-case letters are accepted and are mapped into upper-case; a single hyphen or dash can be used to represent a gap of indeterminate length; and in amino acid sequences, U and * are acceptable letters (see below). ...
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Ссылки http://www.genebee.msu.ru/blast/fasta.html -- 3.9 Кб -- 31.05.1999
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