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. 2009 Feb 18;43(3):179–185. doi: 10.1007/s10858-009-9301-7

Fig. 1.

Fig. 1

An explanation of the SimShift algorithm. Top: an example for a set of local similarities for a target protein (s) and a template protein (t). The notation is as explained in the text. Bottom: combination of a subset of local similarities to yield a self-consistent final alignment