Predicting Interactions between Virus and Host Proteins Using Repeat Patterns and Composition of Amino Acids

Figure 2

Example of computing feature 2 (F2) of amino acid repeats. F2 is the maximum value of the sum of squared length of single amino acid repeats in a window of size six. The maximum repeat size of amino acid S is 3, which is observed in the windows starting at 4, 5, 6, 7, 13, 14, and 15. So, F2 (repeats of S) = 3² = 9. The maximum repeat size of amino acid W is 4, observed in the windows starting at 1 and 2. F2 (repeats of W) = 4² = 16. The maximum repeat size of amino acid R is 6, observed in the window starting at 10. F2 (repeats of R) = 6² = 36.