Use BLAST to find DNA sequences in databases
pMCT118_F 5’- GAAACTGGCCTCCAAACACTGCCCGCCG -3’ (forward primer) pMCT118_R 5’- GTCTTGTTGGAGATGCACGTGCCCCTTGC -3’ (reverse primer) |
a) In the graphic summary, horizontal lines with different colours appeared in a sequence. Here the colours indicate the alignment scores while comparing the given sequence in different oranisms with green lines indicatiing alignment score of 50-80%, blue lines 40-50% and black lines less than 40%. Moreover the lengths of these lines and their positions indicate the segments of their sequence similarilty
b) E-Value of the most significant hits is 3e-05
c) The species names of less significant hits are Pan Troglodytes, Nicotiana Tabacum, Papio anubis, Gorilla gorilla etc. All these species have lower maximum score value and lower total score value than the species with most significant hits. Moreover, These species are related to the species with most significant hits in that their query cover matches to a great extent.
d) 13- 24 repeat units as is evident from the data
Use BLAST to find DNA sequences in databases Perform a BLAST search as follows: Do an...
QUESTIONS 1) Do a BLASTP search using RBP4 (NP_006735), restricting the output to Arthropoda (Insects). How many databases matches have an Evalue less than 0.01 in this search? (10 points) 2) Next, do a BLASTN search using the RBP4 nucleotide sequence (NM_006744). For this query, select only the nucleotides corresponding to the coding region of the DNA. (To do this visit the NCBI Nucleotide page, follow the link to the coding sequence [CDS), then choose the FASTA format.) How many...
x Assignment 1 - Database.pdf ... Learn how to access and use NCBI databases Question 1: Search Taxonomy database for: 1) Homo sapiens, 2) Heterodoxus macropus, 3) E. coli. a. What is the common name of the species? b. How many nucleotide or protein sequence records do you find (show your search results in cropped windows)? Question 2: Use the name "plague thrips" to search the Nucleotide database. a. What is the scientific name of the plague thrips? b. How...
Part I— Just Bad Luck? Brrrring! Brrrring! Jane checked the caller ID on her phone. “Sam! Great!” she thought. It was always nice to get a call from her older brother. But a little twinge of worry tugged at her. It was just a couple of weeks ago that he had mentioned making an appointment with his doctor about some abdominal pain he had been having. “Hi Sam! It’s great to hear from you,” Jane answered. “Hi Jane. Well I...
Roadmap To start, use the provided template file (on Blackboard): project_01_template.py. Replace the pass statements with your code. Notice that we included test cases under every function. If you run the project_01_template.py file at this point it should print False for each test. After you write the correct code for each function, and then run the file, it should print True for each test. 1. Write a function named gc_content that takes one argument sed and performs the following tasks:...