Order-preserving pattern matching 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...

Order-Preserving Pattern Matching with k Mismatches

We study a generalization of the order-preserving pattern matching recently introduced by Kubica et al. (Inf. Process. Let., 2013) and Kim et al. (submitted to Theor. Comp. Sci.), where instead of looking for an exact copy of the pattern, we only require that the relative order between the elements is the same. In our variant, we additionally allow up to k mismatches between the pattern of leng...

Pattern Matching in Strings

Efficient Algorithms for the Order Preserving Pattern Matching Problem

Given a pattern x of length m and a text y of length n, both over an ordered alphabet, the order-preserving pattern matching problem consists in finding all substrings of the text with the same relative order as the pattern. It is an approximate variant of the well known exact pattern matching problem which has gained attention in recent years. This interesting problem finds applications in a l...