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Finding Approximate Palindromes in Strings Quickly and Simply

L. Allison
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Abstract

Described are two algorithms to find long approximate palindromes in a string, for example a DNA sequence. A simple algorithm requires O(n)-space and almost always runs in $O(k.n)$-time where n is the length of the string and k is the number of ``errors'' allowed in the palindrome. Its worst-case time-complexity is $O(n^2)$ but this does not occur with real biological sequences. A more complex algorithm guarantees $O(k.n)$ worst-case time complexity.

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L. Allison. 2004-12-01. Finding Approximate Palindromes in Strings Quickly and Simply. https://arxiv.org/abs/cs/0412004

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