title: Graphical visualization of the biologically significant segments in the sequence sets of the relative plant viruses.
abstract: The author's and collaborators' computational investigations of the conserved biologically significant segments within viral nucleotide and amino acid sequences are considered in the article. The results obtained suggest that the interactive graphical visualization of the short identical or similar sites in the sequence sets of relative viruses allows to reveal various specific elements such as right, inverted tandem, opposite and regular repeals; deletion/insertion; GC/AT-rich sites; contexts of translation initiation and termination codons; transcription initiation signals; spontaneous nucleotide substitutions; codon usage bias etc. To reveal and investigate different biologically significant sequences very short and simple computer programs, based on common sequence scanning algorithm, may be employed. Various graphic objects, which appeared during visualization of similar sites, may be computationally converted into corresponding nucleotide or amino acid sequences followed by writing within a text file. The change of some scanning parameters or slight modification of certain program modules allows to enlarge the program potentialities. A set of little and simplified computer programs obtained by successive modifications of the initial program is a suitable tool for quick revealing and investigating various biologically significant sequence sites.
authors.affiliation: Zabolotny Institute of Microbiology and Virology, National Academy of Sciences of Ukraine, 154 Acad Zabolotny St., Kyiv, MSP, D03680, Ukraine.
authors.forename: I S
authors.initials: IS
authors.lastname: Shcherbatenko
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D001483:Base Sequence; D003062:Codon; D019295:Computational Biology; D017124:Conserved Sequence; D015967:Gene Expression Regulation, Viral; D016679:Genome, Viral; D008969:Molecular Sequence Data; D005810:Multigene Family; D016254:Mutagenesis, Insertional; D010942:Plant Viruses / Q000235:genetics*; D010944:Plants / Q000821:virology; D017384:Sequence Deletion; D012984:Software; D020080:Tandem Repeat Sequences
chemical_list: D003062:Codon