NCBI BLAST tool Tutorial | Install | Build Database | blastn Blastp

The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

1️⃣ Search Blast tool - Go to the site called
https://blast.ncbi.nlm.nih.gov/Blast.cgi

2️⃣Go to Download Blast

https://blast.ncbi.nlm.nih.gov/doc/bl...

https://ftp.ncbi.nlm.nih.gov/blast/ex...

3️⃣ Extract

tar xvzf ncbi-blast-2.17.0+-x64-linux.tar.gz


4️⃣ Build database

mkdir ntDB

./makeblastdb -dbtype nucl -in orf_coding.fasta -out ntDB/db


5️⃣ Run Blastn

./blastn -evalue 1e-05 -db ntDB/db -query query_nt.fasta -out blast_hit.txt




🎯🎯🎯🎯🎯 For protein 🎯🎯🎯🎯🎯

1️⃣ Build database for protein

mkdir ProDB

./makeblastdb -in orf_trans_all.fasta -dbtype prot -out ./ProDB/db_aa


2️⃣ Run blastp

./blastp -evalue 1e-05 -db ./ProDB/db_aa -query query_protein.fasta -out query_protein.hit



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🏷️ Channel tags

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