456616
Descrição
Quiz por gina_evans0312, atualizado more than 1 year ago
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Criado por gina_evans0312
mais de 10 anos atrás
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Questão 1
Questão
What is done in pairwise alignment?
Responda
-
Two sequences are stuck on top of each others and the common areas lined up
-
Two sequences are aligned from the beginning and their similarity analysed
-
Two sequences are aligned and their similarity analysed
Questão 2
Questão
Local alignment assigns correspondences to all residues in the sequence, leaving gaps if necessary
Responda
- True
- False
Questão 3
Responda
-
An indel
-
A mismatch
Questão 4
Responda
- True
- False
Questão 5
Questão
What can sequence identity be used for?
Responda
-
DNA sequence
-
Amino acid sequence
-
Gene sequence
Questão 6
Questão
Sequence identity can be how specific?
Responda
-
Global
-
Local
Questão 7
Questão
What are GAPS?
Responda
-
Spaces in part of the sequence that allows other areas to align better
-
Areas with a high density of indels
-
Proteins that align when sequences are swapped over
Questão 8
Questão
What is the scoring system that determines an optimal alignment?
Responda
-
+2 Match -1 Indel -2 Mismatch
-
+2 Mismatch -1 Match -2 Indel
-
+2 Match -1 Mismatch -2 Indel
Questão 9
Questão
Needleman and Wunsch algorithms find the highest scoring path across a matrix
Responda
- True
- False
Questão 10
Responda
-
Light- Remote homologues Dark - Close homologues
-
Light- Close homologues Dark- Remote homologues
Questão 11
Questão
PAM matrices used varies depending on the S.I
Responda
- True
- False
Questão 12
Questão
PAM250 scoring is used for remote homologues
Responda
- True
- False
Questão 13
Questão
In PAM250 scoring, scores are given based on what?
Responda
-
The residue rarity
-
The properties of the replacing residue- i.e. is one small hydrophobic residue replacing another
Questão 14
Questão
What does BLAST stand for?
Responda
-
Basic Loci Alignment Search Tools
-
Basic Loci Alignment Sequencing Tools
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Basic Local Alignment Search Tools
Questão 15
Questão
What is different about BLAST techniques?
Responda
-
The compare residue 'words' instead of single residues/bases
-
They work in areas of less than 50bp long
-
They cover the whole genome very rapdily
Questão 16
Questão
A 'word' is 3bp or 11 aa long
Responda
- True
- False
Questão 17
Questão
Once the words have been found in the sequence, they are compared to the database- why?
Responda
-
To find exact matches
-
To find evolutionary relationships
-
To detect how common the words are
Questão 18
Questão
An E value is expectation, not probability
Responda
- True
- False
Questão 19
Questão
What is the range and significance for the E value?
Smaller values are more likely
Responda
-
0-10
-
1-2
-
0-1
-
0.5
-
5
-
0.005
Questão 20
Questão
The E value is the probability of getting a result by change in a database of this size
Responda
- True
- False
Questão 21
Questão
What is the difference between P and E values
Responda
-
Both are values for 'What is the probability of getting this result by chance alone?', but P accounts for database size
-
Both are values for 'What is the probability of getting this result by chance alone?', E accounts for database size
Questão 22
Questão
In P values, <0.05 is significant
Responda
- True
- False
Questão 23
Questão
P value relies on a normal distribution
Responda
- True
- False
Questão 24
Questão
What are the limits of P?
Responda
-
0-0.1
-
0-1
-
0-10
Questão 25
Questão
An E of 4 is equal to - in a database of this size, I could get 4 matches by chance alone
Responda
- True
- False
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