Hi Hilton. Thanks for your suggestion.
I saw re module. I should have explain a little bit in my message that patter
of polymer is not constant. There could be variety of combinations given A, T G
and C.
it could be AAATAAA, ATATATAT, or GTAGTAGTA or GGGACCCGAAAT etc.
so I do not know what that pattern would be when I read in a string. I do not
know if regex could solve my kind of problem too.
Thanks
Hs.
________________________________
From: Hilton Fernandes <hgfer...@gmail.com>
To: "tutor@python.org" <tutor@python.org>
Cc: Hs Hs <ilhs...@yahoo.com>
Sent: Thursday, January 19, 2012 1:39 PM
Subject: Re: [Tutor] finding a polymer of letters in a string
Hi !
Have you considered regular expressions in Python ?
Please take a look at "Regular Expression HOWTO", at
http://docs.python.org/howto/regex.html
All the best,
Hilton
On Thu, Jan 19, 2012 at 4:09 PM, Hs Hs <ilhs...@yahoo.com> wrote:
Hi:
>I am writing to see if I could any help.
>I am trying to find if a mutation in gene falls in a polymer region of DNA. To
>explain in simplistic terms,
>
>
>
>Given a piece of DNA string, with following characters, I know where mutation
>happens. Happens at T (in quotes with spaces.) 3 As before T and 4 As after T
>are removed in a disease.
>
>
>
>Given following sequence, I should be able to find if this T is in a polymer
>region. such as 'AAA' T 'AAAA.
>
>
>
>AAATAGCAGAAA 'T' AAAAGAAAAGATTGGAACTAGGTCAG
>
>
>
>
>
>
>I am not sure if there are any methods in python to find these. Do you think
>a script has to be written with more logic involving some known algorithms.
>
>
>
>Please advise.
>
>
>
>thanksHs.
>
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