BLAST

Select one of your interesting sequences from the database (sequence should be longer than 300 base pair) to do the BLAST search and answer the following questions:

a. What are the different between 6 BLASTs(blastn, blastp, blastx, tblastn, tblastx, PSI-BLAST)?
b. Use your sequence to do 3 out of 6 BLASTs and discuss "What’s the strength and weakness of BLAST you have selected?"
c. Show us the first hit on each BLAST with their identity or/and similarity scores.
d. Summarize the result from 3 BLASTs you select.


BLAST stands for Basic Local Alignment Search Tool.The emphasis of this tool is to find regions of sequence similarity, which will yield functional and evolutionary clues about the structure and function of your novel sequence.
6 type of BLAST such as
blastn
blastp
blastx
tblastn
tblastx
PSI-BLAST


Step to use BLAST
1. Prepare sequence by
1.1 Open NCBI program by search from google website




1.2 Choose the interesting sequence and get in FASTA format.



2.Open BLAST program by search from google website



program will show as picture




b. Use your sequence to do 3 out of 6 BLASTs and discuss "What’s the strength and weakness of BLAST you have selected?"



2.1 Choose BLAST type first we choose nucleotide BLAST (blastn)




2.2 In put the squence and setting up the BLAST options



2.3 Run BLAST program program will run and will get the result as picture






c. Show us the first hit on each BLAST with their identity or/and similarity scores.




3.Repeat step 2.1-2.3 but change BLAST type as (tblastx) result show as picture







4.Repeat step 2.1-2.3 but change BLAST type as (blastp) result show as picture







d. Summarize the result from 3 BLASTs you select.