Q. The matrices PAM250 and BLOSUM62 contain _______

View solution

Q. The higher is the score in the alignment _________

View solution

Q. Gaps are added to the alignment because it ______

View solution

Q. Which of the following is not a description of dynamic programming algorithm?

View solution

Q. Which of the following is not a site on internet for alignment of sequence pairs?

View solution

Q. Dayhoff PAM matrices, are based on an evolutionary model of protein change, whereas, BLOSUM matrices, are designed to identify members of the same family.

View solution

Q. A feature of the dynamic programming algorithm is that the alignments obtained depend on the choice of a scoring system for comparing character pairs and penalty scores for gaps.

View solution

Q. Which of the following is untrue regarding dynamic programming algorithm?

View solution

Q. In scoring matrices, for convenience, odds scores are converted to log odds scores.

View solution

Q. Which of the following doesn’t describe PAM matrices?

View solution

Q. The assumption in this evolutionary model is that the amino acid substitutions observed over short periods of evolutionary history can be extrapolated to longer distances.

View solution

Q. Which of the following is untrue about the modification of PAM matrices?

View solution

Q. The Dayhoff model of protein evolution is not a Markov process.

View solution

Q. Which of the following is true regarding the assumptions in the method of constructing the Dayhoff scoring matrix?

View solution

Q. The more conserved amino acids in similar proteins from different species are ones that play an essential role in structure and function and the less conserved are in sites that can vary without having a significant effect on function.

View solution

Q. A gap opening penalty for any gap (g) and a gap extension penalty for each element in the gap (r) are most often used, to give a total gap score wx, according to the equation ______

View solution

Q. In the GCG and FASTA program suites, the scoring matrix itself is formatted in a way that includes default ______

View solution

Q. In case of the varying alignment, penalizing gaps heavily might occur. Then the best scoring local alignment between the sequences will be one that optimizes the score between matches and mismatches, without any gaps.

View solution

Q. On analysis of the alignment scores of random sequences will reveal that the scores follow a different distribution than the normal distribution called the _________

View solution

Q. The statistical analysis of alignment scores is much better understood for ________ than for _______

View solution