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Analyses
In this search, no mismatches were allowed. As seen in the setup panel (Figure 4.29, page 4-34), however, it is possible to allow mismatches in any one
or more of the search segments. If a single mismatch is allowed in the
Figure 4.31: Find Sequence Output With Mismatches (DNA)
tataaa sequence and the analysis is recalculated, the results shown in Figure 4.31, page 4-36 are obtained. Notice that the positions with mismatches
are shown in lower case letters in the table output, while the exact matches
are in upper case letters, the same convention used in the Find Repeats
panel.
If you enter a query sequence in both upper and lower case letters and then
you allow mismatches to occur, the mismatches will only be allowed to occur
in the lower case characters. For example, if the search sequence for the
tataaa were entered as TATAaa and one mismatch was allowed, the
matches discovered in Figure 4.31 would only consist of the match starting at
Page 4-36