VCU Bioinformatics and Bioengineering Summer Institute
Scoring and Proetin Alignment
Questionnaire

Part I: Basic information

Your name 

Part II: Scoring sequence alignments

1. How are you with the calculation and deeper meaning of E, the expected number of matches? 

2. How are you with bit scores and their relationship to E? 

3. Would you like to see SQ5 or SQ6 covered? (Note that SQ6 refers to a mythical SQ1, which should be taken to mean the previous SQ). Any other comments on this section? 

Part III: Aligning protein sequences

4. How do you feel about PAM matrices and how they are calculated? 

5. How do you feel about BLOSUM matrices and how they are calculated? 

6. Would you like to see SQs 7-10 covered? Any other comments on this section? 
 

Part V: Miscellaneous

7. Other comments, concerns, questions? 

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