msatcommander specifications


Unique identifier OMICS_16541
Name msatcommander
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Input data The DNA sequence data in single-sequence or concatenated.
Input format FASTA
Output data A summary file, the locus-specific primers.
Output format CSV
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License GNU General Public License version 2.0
Computer skills Medium
Version 1.0.8
Stability Stable
Requirements BioPython, wxPython
Maintained Yes



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  • person_outline Brant Faircloth <>

msatcommander article

msatcommander citation

PMCID: 4103478

[…] algorithm (altschul et al., 1990) with an e-value cutoff of 1.0e-5. we screened the sequences including microsatellite regions for ≥6 dinucleotide repeats and ≥4 tri- to hexanucleotide repeats using msatcommander (faircloth, 2008) and designed primers using primer3 software (rozen and skaletsky, 2000). a total of 6471 primer pairs bordering microsatellites were designed, and 96 pairs […]

msatcommander institution(s)
D. B. Warnell School of Forestry and Natural Resources, The University of Georgia, Athens, GA, USA
msatcommander funding source(s)
Supported by the Tall Timbers Research Station and Land Conservancy’s Quail Research Initiative, Daniel B. Warnell School of Forestry and Natural Resources, UGA, McIntyre-Stennis projects GEO-0100-MS and GEO-0136-MS, and the UGA Institute of Ecology.

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