Questions and answers for exam Preparation

MCQs

Total Questions : 80 | Page 3 of 8 pages

Question 21. Which of the following is untrue regarding the Progressive Alignment Method?

Progressive alignment depends on the stepwise assembly of multiple alignments and is heuristic in nature
It speeds up the alignment of multiple sequences through a multistep process
It first conducts pair wise alignments for each possible pair of sequences using the Needleman–Wunsch global alignment method and records these similarity scores from the pair wise comparisons
Its drawback is it slows down the alignment of multiple sequences through a single step process

Discuss Question

Answer: Option D. -> Its drawback is it slows down the alignment of multiple sequences through a single step process
Answer: (d).Its drawback is it slows down the alignment of multiple sequences through a single step process

Question 22. Clustal is a progressive multiple alignment program available either as a stand-alone or on-line program.

True
False
May be True or False
Can't say

Discuss Question

Answer: Option A. -> True
Answer: (a).True

Question 23. Which of the following is untrue regarding T-Coffee?

It stands for Tree-based Consistency Objective Function for alignment Evaluation
It performs progressive sequence alignments as in Clustal.
The global pair wise alignment is not performed using the Clustal program.
The local pair wise alignment is generated by the Lalign program, from which the top ten scored alignments are selected

Discuss Question

Answer: Option C. -> The global pair wise alignment is not performed using the Clustal program.
Answer: (c).The global pair wise alignment is not performed using the Clustal program.

Question 24. Which of the following is not a drawback of the progressive alignment method?

The progressive alignment method is not suitable for comparing sequences of different lengths because it is a global alignment–based method
In this method the use of affine gap penalties, long gaps are not allowed, and, in some cases, this may limit the accuracy of the method
In this method the use of affine gap penalties, long gaps is allowed, and, in some cases, this may limit the accuracy of the method
The final alignment result is also influenced by the order of sequence addition

Discuss Question

Answer: Option C. -> In this method the use of affine gap penalties, long gaps is allowed, and, in some cases, this may limit the accuracy of the method
Answer: (c).In this method the use of affine gap penalties, long gaps is allowed, and, in some cases, this may limit the accuracy of the method

Question 25. Which of the following is untrue regarding the progressive alignment method?

The program also applies a weighting scheme to increase the reliability of aligning divergent sequences (sequences with less than 25% identity)
The progress is done by down weighting redundant and closely related groups of sequences in the alignment by a certain factor
This scheme is useful in enhancing similar sequences from dominating the alignment
None of the mentioned

Discuss Question

Answer: Option C. -> This scheme is useful in enhancing similar sequences from dominating the alignment
Answer: (c).This scheme is useful in enhancing similar sequences from dominating the alignment

Question 26. Which of the following is untrue about iterative approach?

The iterative approach is based on the idea that an optimal solution can be found by repeatedly modifying existing suboptimal solutions
Because the order of the sequences used for alignment is different in each iteration
This method is also heuristic in nature and does not have guarantees for finding the optimal alignment
This method is not based on heuristic methods

Discuss Question

Answer: Option D. -> This method is not based on heuristic methods
Answer: (d).This method is not based on heuristic methods

Question 27. The major drawback of the progressive and iterative alignment strategies is that they are largely global alignment based and may therefore fail to recognize conserved domains and motifs among highly divergent sequences of varying lengths.

True
False
May be True or False
Can't say

Discuss Question

Answer: Option A. -> True
Answer: (a).True

Question 28. Which of the following is untrue about PRRN?

PRRN is a web-based program that uses a double nested iterative strategy for multiple alignment
It performs multiple alignments through two sets of iterations: inner iteration and outer iteration
In the outer iteration, an initial random alignment is generated that is used to derive a UPGMA tree
In the inner iteration, the sequences are randomly divided into multiple groups

Discuss Question

Answer: Option D. -> In the inner iteration, the sequences are randomly divided into multiple groups
Answer: (d).In the inner iteration, the sequences are randomly divided into multiple groups

Question 29. Which of the following is untrue about DIALIGN2?

It is a web based program designed to detect local similarities
It is designed to detect global similarities
It does not apply gap penalties and thus is not sensitive to long gaps
The method breaks each of the sequences down to smaller segments and performs all possible pair wise alignments between the segments

Discuss Question

Answer: Option B. -> It is designed to detect global similarities
Answer: (b).It is designed to detect global similarities

Question 30. Match-Box compares segments of some of the nine residues of possible Pair wise alignments.