SAT : SSR Analysis Tool

SAT is a web-based pipeline conceived to analyse sequences obtained from SSR (Simple Sequence Repeat) enriched libraries.

This tool successively performs

base-calling and quality evaluation of chromatograms
vector and adaptors removing
restriction digestion in order to separate the DNA fragments which could have formed chimera during the process of library construction
SSR recognition
clustering
sequence alignment
primer design
virtual PCR to establish primer specificity

The pipeline is associated to a database to store the different steps of the run, and to reprocess some further analysis on the consensus sequences and their respective primers (specificity, refinement of the alignment, sequences without primers,etc..)
You must be registered in the database to launch the pipeline or access the database.
To create an account, please contact ssr-analysis-tool@cirad.fr

Reference:
SAT, a flexible and optimized Web application for SSR marker development, Alexis Dereeper, Xavier Argout, Claire Billot, Jean-Francois Rami and Manuel Ruiz, BMC Bioinformatics, 2007, 8:465 [PubMed]

Last update : June 06 2008

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