Using PAM.py and PAM1.txt as a starting point, modify your Blast alignment program so that it creates and stores a PAM250 matrix we calculate (It shouldn't be necessary to actually copy and paste 3"? text from PAM - py into your program - if you are clever, you can simply import the necessary functionality from PAM . by and call whatever methods you need to calculate an appropriate PAM matrix. 1b) The biggest difference between BLASTP and BLASTN is that normal BLASTN only has to check whether or not there is an exact match between the current symbol found in the query and the current symbol found in the target (i.e., does 'A' == 'A') and scores accordingly using binary (true/false) logic. But with protein comparisons, amino acids might be considered an exact, a good, a poor, or a downright unfavorable substitution depending on which pair of amino acids happens to be under consideration. We therefore need to look up the score from the PAM dict we have calculated. Modify your program so that reward/ penalty values are appropriately looked up from the PAM matrix during scoring