GMATo: A novel tool for the identification and analysis of microsatellites in large genomes.

ABSTRACT:

Unlabelled

Simple Sequence Repeats (SSR), also called microsatellite, is very useful for genetic marker development and genome application. The increasing whole sequences of more and more large genomes provide sources for SSR mining in silico. However currently existing SSR mining tools can't process large genomes efficiently and generate no or poor statistics. Genome-wide Microsatellite Analyzing Tool (GMATo) is a novel tool for SSR mining and statistics at genome aspects. It is faster and more accurate than existed tools SSR Locator and MISA. If a DNA sequence was too long, it was chunked to short segments at several Mb followed by motifs generation and searching using Perl powerful pattern match function. Matched loci data from each chunk were then merged to produce final SSR lo

SUBMITTER: Wang X 

PROVIDER: S-EPMC3705631 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature