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Smith-Waterman Algorithm - Local Alignment of Sequences





1. Take the Insulin protein (amino acid) sequences of two organisms like Octodon degus (AAA40590.1) which is a species of rodent (commonly called rat) and Cavia Porcellus (AAA37041.1), commonly called Guinea pig, also a species of rodent rat. Align both of the protein sequences using local alignment method based on a online tool “EMBOSS-water”( http://www.ebi.ac.uk/Tools/psa/emboss_water/) and find out the similarity percentage between the two protein sequences.


2. Find out the similarity percentage of the nucleotide sequences of the two organisms given in first question?



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