PAIRWISE SEQUENCE ALIGNMENT – A GLOBAL ALIGNMENT APPROACH

Roma Chandra* and Sumit Kumar

ABSTRACT

Sequence alignment is a process to find similar regions when two or more than two sequences are aligned together. Motif or similar regions are supposed to be the consequence of structural, functional or evolutionary relationships between sequences. Sequences can be either nucleotide or protein sequences usually in fasta format. Alignment includes role of specific biological databases both for nucleotide and protein sequences like SWISSPROT, PDB, etc. for protein sequences and GenBank, EMBL,DDBJ ,etc. for nucleotide sequences. The two common types of alignment methods include pairwise and multiple sequence alignment which tends to find similar regions either of the two types - local or global type. Information obtained from sequence alignment is helpful and show applications including motif prediction, homology modeling, and phylogenetic tree construction. Dynamic programming method under global alignment approach produces optimal alignment results. The article includes study of global alignment process.

Keywords: GenBank, EMBL,DDBJ, etc.