Question: Alignment Matrix
0
gravatar for jan.shegers
4.3 years ago by
jan.shegers10
jan.shegers10 wrote:

Dear all,

I have a problem with the following website: http://www.nature.com/scitable/topicpage/basic-local-alignment-search-tool-blast-29096

More specific, I have a problem with the matrix (completely filled in one). Is it possible that some errors have been made while completing this matrix? If you look (for example) at "the crossing" of row 4 and column 2 => L(-4) and E(-2), if I compare those, I do not get -0 as a score, I get -2 (-1 + -1 =-2)

So I am not sure if this matrix is filled in correctly or I am doing something horrible wrong here.

alignment blast • 830 views
ADD COMMENTlink modified 4.3 years ago by Giovanni M Dall'Olio25k • written 4.3 years ago by jan.shegers10
2
gravatar for Devon Ryan
4.3 years ago by
Devon Ryan70k
Freiburg, Germany
Devon Ryan70k wrote:

Yes, there appear to be a number of errors there (I counted 6, but may have missed some). Googling around a bit, it seems that this is a known problem. The graphic was from a book, for which there is an update image.

ADD COMMENTlink written 4.3 years ago by Devon Ryan70k
1

Complete disregard for computational methods in a NPG publication? I don't believe it! ;)

ADD REPLYlink written 4.3 years ago by Neilfws47k

+1 for the sarcasm

ADD REPLYlink written 4.3 years ago by JC6.2k

Aha, ok I see. Thanks. I was doubting my approach.

ADD REPLYlink written 4.3 years ago by jan.shegers10
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