BIF501 Bioinformatics II Assignment No 02 Fall 2020 Solution / Discussion
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BIF501 assignment 2 solution 2021
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A. Explain pairwise alignment and its type? With at least 2 examples? (5)
Answer: The process of lining up two sequences to achieve maximal levels of identity (and
conservation, for amino acid sequences) for the purpose of assessing the degree of similarity and the
possibility of homology.
• Optimal global alignment methods allow the best overall score for the comparison of the two
sequences to be obtained, including a consideration of gaps.
• Optimal local alignment algorithms seek to identify the best local similarities between two sequences
but, unlike segment methods, include explicit consideration of gaps.
there are two types of pair alignments.
Needleman-Wunsch global alignment.
A global alignment is one that compares the two sequences over their entire lengths, and is appropriate
for comparing sequences that are expected to share similarity over the whole length.
Needleman-Wunsch  algorithm for global alignmen
Smith-Waterman local alignment
In Local alignment we compare one whole sequence with the one portion of other like this.
A second comparison method, local alignment, searches for regions of local similarity and need not
include the entire length of the sequences. Local alignment methods are very useful for scanning
databases or when you do not know that the sequences are similar over their entire lengths. The
EMBOSS program water is a rigorous implementation of the Smith Waterman algorithm for local
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bif501 assignment no. 2 solution
bif501 assignment 2 solution
bif501 assignment 2 solution 2020
bif501 assignment NO2 solution 2021