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SVARAP specifications


Unique identifier OMICS_12902
Alternative name Sequence VARiability Analysis Program
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
License Other
Computer skills Medium
Version 2.1.2
Stability Stable
Microsoft Excel, Clustal X alignment
Maintained No




No version available



This tool is not available anymore.

Publication for Sequence VARiability Analysis Program

SVARAP citations


Core Gene Set As the Basis of Multilocus Sequence Analysis of the Subclass Actinobacteridae

PLoS One
PMCID: 3069002
PMID: 21483493
DOI: 10.1371/journal.pone.0014792
call_split See protocol

[…] The common set of genes thus obtained were aligned using clustal X program, version 1.83, in the PHYLIP software package . New broad range primers were designed for amplification and sequencing using SVARAP software which analyzes and graphically represents the variability in stretches of 50-bp along the nucleotide sequence , . A BLAST search was performed to check potential primers for unspecific […]


Pepper Mild Mottle Virus, a Plant Virus Associated with Specific Immune Responses, Fever, Abdominal Pains, and Pruritus in Humans

PLoS One
PMCID: 2850318
PMID: 20386604
DOI: 10.1371/journal.pone.0010041

[…] two different regions of the PMMoV genome were obtained by RT-PCR amplification using the SuperScript One-Step RT-PCR System (Invitrogen Life Technologies) and primers that had been designed with the SVARAP program . The first targeted region is located near the 5′ end of the genome (primers used are PMMoV5pFwd: 5′-ATATCTGATGATGCAAGTTC-3′, 348 (the primer location was defined in reference to seque […]


Sca1, a previously undescribed paralog from autotransporter protein encoding genes in Rickettsia species

BMC Microbiol
PMCID: 1388218
PMID: 16504018
DOI: 10.1186/1471-2180-6-12
call_split See protocol

[…] To identify sca1 sequence fragments variable among Rickettsia species and useable as a PCR target, we used the Sequence Variability Analysis Program (SVARAP) software []. This software determines the genetic diversity among sequences using a sliding window analysis, by moving a window of 50 nucleotide position […]


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SVARAP institution(s)
Laboratoire de virologie, Fédération hospitalière de bactériologie-virologie clinique et d'hygiène, CHRU Timone, Marseille, France; Unité des Rickettsies, CNRS UMR 6020 IFR48, Faculté de médecine, Université de la Méditerranée, Marseille, France

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