Question 1: You have a short DNA sequence. Basically how many proteins can it potentially encode (potential reading frame)?

1
2
4
6

Question 2: Which of the following amino acids is least mutable according to PAM scoring matrix?

Methionine
Alanine
Cysteine
Glutamine

Question 3: You have two distantly related proteins. Which BLOSUM or PAM matrix is best to use to compare them?

BLOSUM45 or PAM250
BLOSUM80 or PAM250
BLOSUM45 or PAM1
BLOSUM80 or PAM1

Question 4: You have a DNA sequence and want to know which protein in the protein database is most similar to some protein encoded by your DNA. Which program should you use?

BLASTN
BLASTX
TBLASTN
TBLASTX