Similarity Searching the databanks.

***"I have sequenced a gene (or part of a gene). Are there any sequences in the molecular databanks that are similar to my sequence data?"

***Will this task require enormous computer time, since
***a few million sequences in the databases will be searched and compared with the query sequence
***a similarity matrix will be statistically calculated
***the statistics will need to be stored
***the information will than be shifted and the comparisons sorted to find the best matches to the query sequence
***Today computers do this type of work eg FASTA or BLAST search - and returns the results in about 5 minutes! (numerous other programmes also exist and include FLASH etc)

***This type of similarity search is the first step for virtually all sequence analysis work.

Bharat Patel, Biomolecular & Physical Sciences, Griffith University
Comments to: