Just paste in the horizontal sequence one sequence and in the vertical sequence a different one, fill in the word size and the step size and press compute . A set of dots will appear, identifying identical elements of the given size in the two sequences. If instead you want to just analyze a single sequence, paste it in the horizontal sequence window and after having filled the word size and step size push compute . The dots will show the repeats present in your sequence, of that given size. Single sequence Analyzing a single sequence with this applet allows the identification of repeats in a very straightforward manner.
Dots identify identical words.
In this way the comparison of pairs of sequences is made very easy and the analysis of the results absolutely straightforward. Some experiments useful to appreciate the value of the word matching algorithm Word Size Try to vary the word size and see how the pattern change. Try to change the step size and the word size and observe how the pattern changes.