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## Figure 8.
Occupancy frequencies in additive profiles. Here we show an alignment of profiles X and Y giving Z. A column C of indels (shaded
background) has been inserted at position x in order to align X to Y. To compute the number of gap-extensions in column x of Z, three cases must be considered: (1) a gap-extension in the corresponding column
of Y, (2) a gap-open in the preceding column of X, and (3) a gap-extension in the
preceding column of X. By enumerating all such cases, it is straightforward to compute
the occupancy frequencies in Z from the occupancy frequencies of X and Y, plus the
alignment path.
Edgar |