Fast pattern-matching on indeterminate strings

Fast pattern-matching on indeterminate strings

In a string x on an alphabet Σ, a position i is said to be indeterminate iff x[i] may be any one of a specified subset {λ1, λ2, . . . , λj} of Σ, 2 ≤ j ≤ |Σ|. A string x containing indeterminate positions is therefore also said to be indeterminate. Indeterminate strings can arise in DNA and amino acid sequences as well as in cryptological applications and the analysis of musical texts. In this ...

An Adaptive Hybrid Pattern-Matching Algorithm on Indeterminate Strings

We describe a hybrid pattern-matching algorithm that works on both regular and indeterminate strings. This algorithm is inspired by the recently proposed hybrid algorithm FJS [11] and its indeterminate successor [15]. However, as discussed in this paper, because of the special properties of indeterminate strings, it is not straightforward to directly migrate FJS to an indeterminate version. Our...

Fast Pattern Matching in Strings

An algorithm is presented which finds all occurrences of one. given string within another, in running time proportional to the sum of the lengths of the strings. The constant of proportionality is low enough to make this algorithm of practical use, and the procedure can also be extended to deal with some more general pattern-matching problems. A theoretical application of the algorithm shows th...

Pattern Matching in Strings

Efficient Pattern Matching on Binary Strings

The binary string matching problem consists in finding all the occurrences of a pattern in a text where both strings are built on a binary alphabet. This is an interesting problem in computer science, since binary data are omnipresent in telecom and computer network applications. Moreover the problem finds applications also in the field of image processing and in pattern matching on compressed ...