Module 2 Assignment 605.451 Principles of Computational Biology Solved

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Small Project 1

  1. Find the best local alignment between the following two sequences using two ways:
    1. Manually calculate scores on the DP table, draw the path, and write out the two aligned sub sequences. (50 points)
    2. Write a computer program in Java or any other programming languages to compute the local alignment score and print out the aligned two sub sequences. (50 points)




Linear gap model:

Gap = -4

Match = 5

Mismatch = -4



What to turn in

  • Turn in DP table with the scores and paths
  • Turn in the two aligned sub sequences
  • Turn in your source code
  • Turn in the output from your program