Consider the following hypothetical multiple alignment of sequences:1: ATTG2: ATTC3: ATGG4: GTTC5: ATTGCompute (using pen and paper) the BLOSUM90 scoring matrix. Use simple elimination if thereare sequences that are too similar.Note that here we are using DNA. Normally, a Blosum ist made only for proteins. We do this tokeep the number of symbols small.Write a program (R or Python) that takes a multiple alignment after elimination of sequences thatare too closely related and produces a BLOSUM matrix out of it.

Intro: In this question, it asked to write a program that takes multiple alignments and determine…

Answered: Write a program (R or Python) that…

Write a program (R or Python) that takes a multiple alignment after elimination of sequences that are too closely related and produces a BLOSUM matrix out of it.

Database System Concepts

7th Edition

ISBN:9780078022159

Author:Abraham Silberschatz Professor, Henry F. Korth, S. Sudarshan

Publisher:Abraham Silberschatz Professor, Henry F. Korth, S. Sudarshan

Chapter1: Introduction

Section: Chapter Questions

Problem 1PE

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Concept explainers

Randomized Select Algorithm

A randomized algorithm is defined as one that uses a certain amount of randomization in its logic or operation. It is said to be an algorithm that depends on the random number to perform its operation. It is used for reducing the overall time complexity, space complexity in the standard algorithm. The randomized algorithm uses the concept of random numbers to find the solutions to the different kinds of problems and also to improve the problem solutions.

Question

Consider the following hypothetical multiple alignment of sequences:
1: ATTG
2: ATTC
3: ATGG
4: GTTC
5: ATTG
Compute (using pen and paper) the BLOSUM90 scoring matrix. Use simple elimination if there
are sequences that are too similar.
Note that here we are using DNA. Normally, a Blosum ist made only for proteins. We do this to
keep the number of symbols small.
Write a program (R or Python) that takes a multiple alignment after elimination of sequences that
are too closely related and produces a BLOSUM matrix out of it.

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