Run CLUSTALW and DIALIGN on these 5 strings and observe how many of the 5 planted patterns each program succeeds at aligning. What is the smallest value of n (say, to within the nearest multiple of 100) for which CLUSTALW fails to align any pair of these 5 planted patterns? Same question for DIALIGN. If you cannot get one of these tools to fail in this way simply by increasing n, try also making small changes in the 5 planted instances of the pattern, for instance making each one differ from ACATATTACT in one position.
Report the results of your experiments providing, for each of the two tools, (1) the minimum value of n, (2) the alignment output (with the planted pattern highlighted somehow so that it's easy to see), and (3) how much you had to alter the pattern instances before failure (if at all).