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Biotechnology and Biomedical Engineering
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Bioinformatics Virtual Lab II
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Pairwise sequence alignment using FASTA
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Pairwise sequence alignment using FASTA
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Theory
Procedure
Self Evaluation
Simulator
Assignment
Reference
Feedback
1)
FASTA Compares
Protein and Nucleotide sequence to another sequence in a database.
Nucleic acid sequence to a protein sequence database.
Query sequences that are between 80% and 125% of the length of the query.
) Protein and nucleotide sequence to another sequence in a database by using Global and Local alignment.
2)
Transition table gives.
Genetic codes used in translation
Genetic codes used in transcription
Protein classification
Mutations in translation period.
3)
How many nucleotide or protein databases can be given for one sequence similarity search
One
Two
Three
More than three
4)
Expectation value decreases exponentially
With the score that is assigned to a matches and gaps between two sequences.
With the score that is assigned to a mis match between two sequences.
With the score that is assigned to a gaps between two sequences.
With the score that is assigned to a match between two sequences.
5)
Ktup is for comparison of
Matching score
sequence size for comparison
Word size
score for mismatch
Cite this Simulator:
vlab.amrita.edu,. (2012). Pairwise sequence alignment using FASTA. Retrieved 29 March 2024, from vlab.amrita.edu/?sub=3&brch=274&sim=1434&cnt=3
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