[Tutor] number of mismatches in a string
bgailer at gmail.com
Fri Mar 2 22:47:44 CET 2012
On 3/2/2012 2:11 PM, Hs Hs wrote:
> I have the following table and I am interested in calculating mismatch
> ratio. I am not completely clear how to do this and any help is deeply
> Length Matches
> 77 24A0T9T36
> 71 25^T9^T37
> 60 25^T9^T26
> 62 42A19
> In length column I have length of the character string.
> In the second column I have the matches my reference string.
> In fist case, where 77 is length, in matches from left to right, first
> 24 matched my reference string following by a extra character A, a
> null (does not account to proble) and extra T, 9 matches, extra T and
> 36 matches. Totally there are 3 mismatches
> In case 2, I lost 2 characters (^ = loss of character compared to
> reference sentence) -
> T^MISAGOOD^OY (here I lost 2 characters) = I have 2 mismatches
> TOMISAGOOODBOOY (here I have 2 extra characters O and O) = I have two
> In case 4: I have 42 matches, extra A and 19 matches = so I have 1
> How can that mismatch number from matches string.
> 1. I have to count how many A or T or G or C (believe me only these 4
> letters will appear in this, i will not see Z or B or K etc)
> 2. ^T or ^A or ^G or ^C will also be a mismatch
> desired output:
> Length Matches mismatches
> 77 24A0T9T36 3
> 71 25^T9^T37 2
> 60 25^T9^T26 2
> 62 42A19 1
> 10 6^TTT1 3
I am sorry but I do not understand, and do not have the patience to wade
through all the above in the hopes of gaining insight.
Perhaps you could restate the problem in a way that makes it crystal clear.
Chapel Hill NC
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