SNP in FASTA files

[dziq]

Hello to All,

I just want to introduce you simple application written in Flask and Biopython which helps you to find SNPs in FASTA files from NCBI. Have fun if you like it. It's free to use:

http://nitkiewicz.me

[dziq]

I've add some description how to use this application. Moreover on my https://github.com/dziq/biopython you can find the source code for it.

[sarvidsson]

I had a look at your site but I don't quite get it - what is the tool useful for?

[dziq]

You have an explanation on that website.
Let's say that you are looking for SNP (AAAACCCCTTTGGAGACC) in some kind of gene (FASTA file form NCBI). Load it to this app, enter sequence and then you can find where it is on gene. It is usefull if you want to project primers.

[sarvidsson]

... Let's say that you are looking for SNP (AAAACCCCTTTGGAGACC) ...

That's what I don't get - perhaps a language issue or my brain isn't working today - to me a SNP is a single nucleotide polymorphism at a specific position and can't be described by 18 bases.

[dziq]

Ok missunderstanding SNP shoud be write as AAAACCC(C/G)AAATTAA

[sarvidsson]

Ok, that cleared the main confusion. Perhaps you attract more users if you describe the typical application (primer finding for SNPs). Does the tool design the primers as well?

[dziq]

No, but all suggestions are welcomed