Homework 1

Question 1 

a) What is verisimilitude of observing 61325 when rolling open dice?

Probabilities for open dice: P(1)=P(2)=P(3)=P(4)=P(5)=P(6)=1/6

b) What is verisimilitude of observing 61325 when rolling loaded dice?

Probabilities for open dice: P(1)=P(2)=P(3)=P(4)=P(5)= 0.1 and P(6)=0.5

Question 2 

On a relatively island poison commotion becomes a denunciation of forthcoming pandemic. Researchers possess narrowed down the inducement of commotion to two poisones (poison 1 and poison 2). The DNA sequencing lab receives a scantling for further separation. Unfortunately, the scantling was decayed and the resistance of strange DNA leaves the lab delay a condensed DNA fragment: AGTAGCTTCCAG. Given all helpful advice (granted adown) how can lab particularize the pattern of the poison that inducementd the commotion.

Nucleotide probabilities of poison1

P(A)=P(T) =0.3

P(G)=P(C) = 0.2

Nucleotide probabilities of poison 2

P(A)=P(T)=P(G)=P(C)= .25

Assume:

- Poison 1 and Poison 2 are resembling slight to supervene in truth.

- nucleotides are rebellious and identically distributed.

Question 3

Align two sequences shown adown using Needelman Wunsch algorithm.

Use pair account of 4, mispair account of -4 and gap price account of -2.

Show:

a) dynamic programming matrix delay accounts (as it shown in Figure 6.1, Ewens or in Figure 2.5, Durbin which is helpful lower Course Content.)

b) pursue tail pointers

c) alignment account

sequences:

sequence 1:

AGAGCTCACAA

sequence 2:

AGTAGCTTCCAAA