[Biodevelopers] Large protein strings when doing BLAST?

[Ethan Strauss]

The largest I know of is "Titin". Take a look at Accession #NM_133378. 
But I agree, 32K is large...
Ethan  

-----Original Message-----
From: biodevelopers-bounces+ethan.strauss=promega.com at bioinformatics.org
[mailto:biodevelopers-bounces+ethan.strauss=promega.com at bioinformatics.o
rg] On Behalf Of Paul Mooney
Sent: Monday, November 27, 2006 3:29 AM
To: Development in Bioinformatics
Subject: Re: [Biodevelopers] Large protein strings when doing BLAST?


On 24 Nov 2006, at 19:18, Theodore H. Smith wrote:

> How large is a "large" protein string normally when doing BLAST?
>
> Will do searches for protein strings say consisting of 32KB of
letters?

Can you point me at a protein that has ~32k bases?
10,000 codons sounds a lot.

> Is there an upper limit? I suppose there is no real upper limit, but 
> there might be a tendency for proteins to rarely go above a certain 
> length... I am trying to design some hobbyist software in biology and 
> these sort of answers would really help my design. Excuse my lack of 
> biology background!

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