... If there's no significant multiple alignment , including the sequence, that you interest, then the secondary structure is built, using only the energy model (just the potential energy of the system is minimized), but very often such method will give unreliable results. ... It should be mentioned that by default, at alignment case, the RNA secondary structure will be predicted for the first sequence of the alignment. ... It is done through optimizing, not the real, but model energy of the structure. ...

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Application of evolutionary model in the evaluation of the quality of pair wise alignment of amino acid sequences Valery Polyanovsky, V. G. Tumanyan Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, 119991 Russia ... : polyanovskyvo@mailfrom.ru, tuman@eimb.ru The purpose of the work is to develop a universal method for estimating the pairwise alignment quality depending on the evolutionary distance (degree of homology) between the ... REFERENCES 1. ...

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... Home :: History of Research :: Research in the phenomenological theory of crystals 3) and constitute a powerful tool for describing the structure of such objects as incommensurate modulated crystal phases, quasicrystals and crystals with structural imperfections, where the classical space symmetry is broken [7-9]. ... Selected Chapters of Theoretical Physics -Moscow: Uchpedgiz, 1960 (Second Edition, 1966) Home :: History of Research :: Research in the phenomenological theory of crystals . ...

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