$)$ The following multiple sequence alignment $($MSA$)$ is given for DNA sequences

CCG

TAG

CGC

TAC

Compute position specific scoring matrix by following the steps below. You can use the

calculator of your computer for this question.

$($a$)$ Convert MSA to a raw frequency table. Fill the following table below, in which the rows

represent nucleotides and columns represent positions. By frequency, we mean normalized

frequency such that the sum of the values for each position should be $1.$ If you cannot compute

a value for a cell you can leave it empty. Overall frequency values should be the normalized

frequency of each nucleotide computed over all positions $($i$.$e$.$ average of the values in each row$).$

Nucleotide$\backslash$Position $123$ Overall

frequency

A

T

C

G

$($b$)$ Normalize the values of the table in part $($a$)$ for the three positions of MSA by dividing them

by overall frequency values. Fill the table below.

Nucleotide$\backslash$Position $123$

A

T

C

G

$2345$

$1$

G

$4$

$($c$)$ Take the log base $2$ of the values in part $($b$)$ and fill the table below