WebSat

WebSat identifies microsatellites (simple sequence repeats, SSRs) in nucleotide sequences and designs PCR primers for their development as molecular markers.

Key Features:

• Sequence submission: Accepts user-provided nucleotide sequences for analysis.
• SSR prediction: Detects and predicts microsatellites (SSRs) within submitted nucleotide sequences.
• Microsatellite visualization: Visualizes identified SSRs in their sequence context to display distribution and characteristics.
• Primer design: Designs PCR primers suitable for amplification of identified microsatellites.
• Parameter control: Provides customizable parameters that govern SSR detection and primer design.
• Data export: Exports identified SSRs and designed primers for downstream analysis.

Scientific Applications:

• Genetic diversity assessment: Enables generation of SSR markers used to assess genetic diversity.
• Population structure analysis: Facilitates SSR marker development for population structure studies.
• Linkage mapping: Produces SSR markers applicable to linkage mapping.
• Plant genetics: Supports marker development and genotyping in plant genetics research.
• Conservation biology: Provides SSR markers for conservation genetics studies.
• Evolutionary studies: Assists in generating SSR markers for evolutionary and phylogeographic analyses.

Methodology:

Users submit nucleotide sequences; the software identifies/predicts microsatellites (SSRs), visualizes their locations, designs primers for amplification, allows parameter customization, and exports results.