SDSE: A software package to simulate the evolution of a pair of DNA sequences |
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Authors: | Oliver Jose L; Marin Antonio; Medina Juan-Ramon |
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Institution: | 1Unidad de Genética, Facultad de Ciencias, Universidad de Granada E-18071 Granada Dpto de Genetica, Facultad de Biologia, Universidad de Sevilla Ap. 1095, E-41080 Seville, Spain |
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Abstract: | An algorithm to simulate DNA sequence evolution under a generalstochastic model, including as particular cases all the previouslyused schemes of nucleotide substitution, is described. The simulationis carried out on finite, variable length, DNA sequences througha strict stochastic process, according to the particular substitutionrates imposed by each scheme. Five FORTRAN programs, runningon an IBM PC and compatibles, carry out all the tasks neededfor the simulation. They are menu driven and interfaced to thesystem through a principal menu. All sequence data files usedand generated by the SDSE package conform to the standard GenBankdatabase format, thus allowing the use of any sequence retrievedfrom this databank, as well as the application of other packagesto analyse, manipulate or retrieve simulated sequences.
Received on August 23, 1988; accepted on November 15, 1988 |
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