Implementing Blast tool for local database on a website using WAMP and Windows

Question

[Pratham]

Hello,

I am a software engineer. I am working on an assignment wherein I have to implement a BLAST tool on a website.

The BLAST tool should work with the local databases I have created in the MySQL server.

I am using a WAMP server on Windows for creating and hosting the website using Dreamweaver.

Please guide me as to how should I proceed to achieve the required solution to this assignment.

Thanks,

Pratham

[Pierre Lindenbaum]

blast ↔ mysql ? blast doesn't use mysql databases.

[Pratham]

I am using a tabular structure database in MySQL. The database table has the required ATGC sequence column.

Does BLAST tool use some different database structure model?

[Pierre Lindenbaum]

Yep, it's a local binary file generated from a fasta using the makeblastdb tool http://www.ncbi.nlm.nih.gov/books/NBK279688/. So, you're using a windows server? Well.... good luck.

[Pratham]

Ok. So is it like for every FASTA file, a local binary file is generated. I can get a corresponding FASTA file for the data stored in my MySQL database table. Using this FASTA file I can generate a local binary file. Will Windows WAMP server be a problem in that case?

[GouthamAtla]

There is no problem with windows server per se, but the slogan everyone follows here is "No 'windows' for serious bioinformatics"

[Pratham]

Thanks for your help. I was confused about the database structure.

Now that I have installed blast-2.2.31+ in my system, I am able to figure out that the BLAST databases are different from relational ones.

I would like to implement a similar BLAST functionality on a website.

Where can I get access to WWWBLAST?