Comparison of Different Sequence Alignment Methods- A Survey

Abstract

Bioinformatics is a promising and inventive research field. Biological Sequence alignment is the inborn part of bioinformatics, which helps to find similarity between biological sequences i.e. DNA and protein. Alignment of biological sequences helps to discover functional and structural similarity of sequences. The biological sequence database has been expanding rapidly due to new sequences being found, which has raised the demand to employ more efficient and fast algorithm. There has been an eruption algorithm in the past few decades to find optimal or nearly-optimal alignments. This paper is focused on the popular sequence alignment algorithms. Different types of alignment method have been discussed on the basis of their optimality and approximate solutions. It has been studied that optimal algorithms, which are based on dynamic programming are giving exact solutions. But these are highly computationally complexed. The stochastic optimization methods has been chosen from literature as the potential candidates for the solution of complex multiple sequence alignments with better speed and care.