Similarity matrices measure the pairwise similarities of objects or data. Here, the larger the assigned value given to the measured data, the greater the similarity. Low values indicate a greater dissimilarity. This type of matrix is used in sequence alignment. Here, an example of how a similarity matrix would be displayed is given. The example is not actually measuring anything, it is just an example. However, if we were comparing the similarities between Microsoft Office 2007 and 2010 they would have a close similarity giving it a larger value. Whereas if we compared Macintosh word processors to that of Microsoft's they would have dissimilar values.
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