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 | | From: | Stefek Borkowski | | Subject: | BLAST interpretation problem. | | Date: | Wed, 1 Dec 2004 23:56:51 +0100 |
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 | Hi again,
I would like to know what the BLAST interpretation really is in the case of
comparing two sequences by the BLAST 2 Sequences online modul. The report
goes as follows:
Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 1/114 (0%)
I would say that the homology of the two proteins is equal to the value of
"Identities", so it would be 28%. What about the "Positives" then? I happend
somewhere in the literature on estimation of the homology between the 2
proteins, stating that it is equal to 36%. This seems to be more or less the
average arithmetic mean of "Identities" and "Positives", namely (28 + 46)/2
is 37% which seems close to the literature value. Is my way of thinking
correct or not necessarily. In other words, whot is the recommended
algorithm of estimationg the homology of two sequences, on the basis of
BLAST report.
Thanks for all your help. Kind regards,
Stefek
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