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MySSP specifications


Unique identifier OMICS_15370
Name MySSP
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Programming languages Pascal
Computer skills Advanced
Stability Stable
Maintained Yes




No version available



  • person_outline Michael Rosenberg <>

Publication for MySSP

MySSP citations


Evaluating the Accuracy and Efficiency of Multiple Sequence Alignment Methods

PMCID: 4267518
PMID: 25574120
DOI: 10.4137/EBO.S19199

[…] support the feature of root sequence as an input, the conservation of motifs or modifying amino acid frequencies among subsequences. it also does not generate alignments for nucleotide sequences. myssp simulates dna sequences using different models of dna evolution such as jukes-cantor, kimura two-parameter, equal input, and hasegawa–kishino–yano. it incorporates the features of indels, […]


The accuracy of several multiple sequence alignment programs for proteins

PMCID: 1633746
PMID: 17062146
DOI: 10.1186/1471-2105-7-471

[…] can potentially be developed and tuned to the alignments present solely in these data sets., recently there have been several dna sequence simulation packages that incorporate indels, such as myssp [] and dawg []. myssp has been widely used in different studies of phylogenetic inference and evolutionary distance estimation coupled with dna alignment accuracy [,]. for proteins, lassmann […]


Multiple sequence alignment accuracy and evolutionary distance estimation

PMCID: 1318491
PMID: 16305750
DOI: 10.1186/1471-2105-6-278

[…] of substitution model complexity, sequence length, and many model parameter choices. this study generally follows the methods from the previous study. all simulations were performed using myssp []. simulations were conducted using the hasegawa-kishino-yano (hky) model of nucleotide substitution []. initial sequences consisted of 1000 random nucleotides, with initial and expected […]

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MySSP institution(s)
Center for Evolutionary Functional Genomics and the School of Life Sciences, Arizona State University, Tempe, AZ, USA
MySSP funding source(s)
This work is partially supported by NIH R03-LM008637 and Arizona State University.

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