[Estimation of the quality of global alignment of amino acid sequences based on evolution criterion].

The aim of the work is to develop the common method for estimating the pairwise alignment quality versus the evolution distance (a degree of homology) between the sequences being comparing, and the type of the alignment procedure. 3D alignments as well as any data on 3D protein structure are not used in the study. Based on the accepted protein sequences evolution model it is possible to estimate the capability of the concrete alignment algorithm to recover the genuine alignment. In this study a classical Needleman and Wunsch global alignment algorithm has been tested on a set of sequences from the Prefab database. Dependences of accuracy and confidence of a global alignment procedure were calculated as consequences of insertions/deletions and mutations shares.