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Principles of Site-Specific Recombinase (SSR) Technology
Published on: May 29, 2008
SSRscanner: a program for reporting distribution and exact location of simple sequence repeats
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Bioinformation
|June 29, 2007
Summary
SSRscanner is a user-friendly PERL program that precisely locates simple sequence repeats (SSRs) within genomes. This tool aids in genome mapping and diversity studies by detailing SSR distribution and frequency.
Area of Science:
- Genomics
- Bioinformatics
Background:
- Simple sequence repeats (SSRs) are vital molecular markers used in various genetic studies.
- These DNA sequences appear in both prokaryotes and eukaryotes, distributed randomly throughout genomes.
- Existing computational tools often fail to report the precise genomic location of SSRs.
Purpose of the Study:
- To develop a user-friendly computer program, SSRscanner, for identifying SSRs.
- To determine the distribution, frequency, and exact chromosomal location of SSRs.
- To enhance SSR analysis for applications like genome mapping and diversity studies.
Main Methods:
- Developed SSRscanner, a program written in PERL.
- SSRscanner analyzes DNA sequences to find SSRs of any repeat length.
- The program outputs the exact position and frequency of each SSR found.
Main Results:
- SSRscanner accurately identifies and reports the precise genomic location of SSRs.
- The program provides frequency data for SSR occurrences.
- It is capable of searching for repeats of variable lengths.
Conclusions:
- SSRscanner offers a valuable tool for detailed SSR analysis in genomic research.
- Its ability to pinpoint SSR locations and frequencies improves genome mapping and diversity studies.
- The program is freely available for non-commercial use.
