Global alignment In nucleotide-based alignment, one algorithm to update scores in comparing two nucleotide sequences is shown below (8 is gap penalty; vị and w; are two nucleotides being compared; µ is a а. constant): - 8 = max [ s - 8 i,j i, j-1 + 1, if v;= wj i-1, j-1 °i-1 j-1 - H, otherwise When performing an alignment of two AA sequences, a scoring matrix is used, which provides the likelihoods (costs) of switching from on AA to another AA. PAM or BLOSUM are well- known such matrices. Suppose, a gap penalty is ô and that a scoring matrix, D[20][20] is given. As shown above, show the core of the dynamic programming for the for loops that update the score s with respect to the AA score matrix D.
Global alignment In nucleotide-based alignment, one algorithm to update scores in comparing two nucleotide sequences is shown below (8 is gap penalty; vị and w; are two nucleotides being compared; µ is a а. constant): - 8 = max [ s - 8 i,j i, j-1 + 1, if v;= wj i-1, j-1 °i-1 j-1 - H, otherwise When performing an alignment of two AA sequences, a scoring matrix is used, which provides the likelihoods (costs) of switching from on AA to another AA. PAM or BLOSUM are well- known such matrices. Suppose, a gap penalty is ô and that a scoring matrix, D[20][20] is given. As shown above, show the core of the dynamic programming for the for loops that update the score s with respect to the AA score matrix D.
Computer Networking: A Top-Down Approach (7th Edition)
7th Edition
ISBN:9780133594140
Author:James Kurose, Keith Ross
Publisher:James Kurose, Keith Ross
Chapter1: Computer Networks And The Internet
Section: Chapter Questions
Problem R1RQ: What is the difference between a host and an end system? List several different types of end...
Related questions
Question
![Global alignment
In nucleotide-based alignment, one algorithm to update scores in comparing two nucleotide
sequences is shown below (8 is gap penalty; vị and w¡ are two nucleotides being compared; u is a
а.
constant):
S
S
— тах [ s
i,j
i, j-1
+ 1, if v;= w;
i-1, j-1
u, otherwise
S
i-l. j-1
When performing an alignment of two AA sequences, a scoring matrix is used, which provides
the likelihoods (costs) of switching from on AA to another AA. PAM or BLOSUM are well-
known such matrices. Suppose, a gap penalty is ô and that a scoring matrix, D[20][20] is given.
As shown above, show the core of the dynamic programming for the for loops that update the
score s with respect to the AA score matrix D.](/v2/_next/image?url=https%3A%2F%2Fcontent.bartleby.com%2Fqna-images%2Fquestion%2F8740dac6-21a8-49cf-bff5-5bc11edff83c%2Fa5284073-208e-4970-b36d-e8781eb4d4ef%2Fi550gm_processed.png&w=3840&q=75)
Transcribed Image Text:Global alignment
In nucleotide-based alignment, one algorithm to update scores in comparing two nucleotide
sequences is shown below (8 is gap penalty; vị and w¡ are two nucleotides being compared; u is a
а.
constant):
S
S
— тах [ s
i,j
i, j-1
+ 1, if v;= w;
i-1, j-1
u, otherwise
S
i-l. j-1
When performing an alignment of two AA sequences, a scoring matrix is used, which provides
the likelihoods (costs) of switching from on AA to another AA. PAM or BLOSUM are well-
known such matrices. Suppose, a gap penalty is ô and that a scoring matrix, D[20][20] is given.
As shown above, show the core of the dynamic programming for the for loops that update the
score s with respect to the AA score matrix D.
Expert Solution
This question has been solved!
Explore an expertly crafted, step-by-step solution for a thorough understanding of key concepts.
Step by step
Solved in 3 steps with 6 images
Recommended textbooks for you
Computer Networking: A Top-Down Approach (7th Edi…
Computer Engineering
ISBN:
9780133594140
Author:
James Kurose, Keith Ross
Publisher:
PEARSON
Computer Organization and Design MIPS Edition, Fi…
Computer Engineering
ISBN:
9780124077263
Author:
David A. Patterson, John L. Hennessy
Publisher:
Elsevier Science
Network+ Guide to Networks (MindTap Course List)
Computer Engineering
ISBN:
9781337569330
Author:
Jill West, Tamara Dean, Jean Andrews
Publisher:
Cengage Learning
Computer Networking: A Top-Down Approach (7th Edi…
Computer Engineering
ISBN:
9780133594140
Author:
James Kurose, Keith Ross
Publisher:
PEARSON
Computer Organization and Design MIPS Edition, Fi…
Computer Engineering
ISBN:
9780124077263
Author:
David A. Patterson, John L. Hennessy
Publisher:
Elsevier Science
Network+ Guide to Networks (MindTap Course List)
Computer Engineering
ISBN:
9781337569330
Author:
Jill West, Tamara Dean, Jean Andrews
Publisher:
Cengage Learning
Concepts of Database Management
Computer Engineering
ISBN:
9781337093422
Author:
Joy L. Starks, Philip J. Pratt, Mary Z. Last
Publisher:
Cengage Learning
Prelude to Programming
Computer Engineering
ISBN:
9780133750423
Author:
VENIT, Stewart
Publisher:
Pearson Education
Sc Business Data Communications and Networking, T…
Computer Engineering
ISBN:
9781119368830
Author:
FITZGERALD
Publisher:
WILEY