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cid : a rapid and efficient bioinformatic tool for the detection of SSRs from genomic libraries
Author(s) -
FREITAS PATRÍCIA D.,
MARTINS DIOGO S.,
GALETTI PEDRO M.
Publication year - 2008
Publication title -
molecular ecology resources
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.96
H-Index - 136
eISSN - 1755-0998
pISSN - 1755-098X
DOI - 10.1111/j.1471-8286.2007.01950.x
Subject(s) - biology , primer (cosmetics) , computational biology , microsatellite , process (computing) , genomic dna , computer science , genetics , dna , operating system , gene , allele , chemistry , organic chemistry
cid is a computational tool developed in the Web environment to process cloned DNA fragments with the objective of masking the vector and adaptor regions, detecting the presence of microsatellites and designing the most appropriate primer pairs for the amplification of the identified repetitive sequences. This entire process is executed by the user in a simple and automated manner with the data input as a Zip file of chromatograms or a multiFASTA file. Thus, it is possible to analyse dozens of sequences at the same time, optimizing data processing and the search for the information of interest. cid is freely available on http://www.shrimp.ufscar.br/cid/index.php.