Related papers: Longest common subsequences in binary sequences

Given a sequence $S$ of length $n$, a letter-duplicated subsequence is a subsequence of $S$ in the form of $x_1^{d_1}x_2^{d_2}\cdots x_k^{d_k}$ with $x_i\in\Sigma$, $x_j\neq x_{j+1}$ and $d_i\geq 2$ for all $i$ in $[k]$ and $j$ in $[k-1]$.…

Let $X_1,X_2,\ldots$ and $Y_1,Y_2,\ldots$ be two random sequences so that every random variable takes values in a finite set $\mathbb{A}$. We consider a global similarity score $L_n:=L(X_1,\ldots,X_n;Y_1,\ldots,Y_n)$ that measures the…

Base sequences BS(m,n) are quadruples (A;B;C;D) of {+1,-1}-sequences, with A and B of length m and C and D of length n, such that the sum of their nonperiodic autocorrelation functions is a delta-function. Normal sequences NS(n) are base…

A longest common extension (LCE) query on a string computes the length of the longest common suffix or prefix at two given positions. A dynamic LCE algorithm maintains a data structure that allows efficient LCE queries on a string that can…

For $A,B\in\mathbb Z$, the Lucas sequence $u_n(A,B)\ (n=0,1,2,\ldots)$ are defined by $u_0(A,B)=0$, $u_1(A,B)=1$, and $u_{n+1}(A,B) = Au_n(A,B)-Bu_{n-1}(A,B)$ $(n=1,2,3,\ldots).$ For any odd prime $p$ and positive integer $n$, we establish…

Given several number sequences, determining the longest common subsequence is a classical problem in computer science. This problem has applications in bioinformatics, especially determining transposable genes. Nevertheless, related works…

Let $X^1, ..., X^k$ and $Y^1, ..., Y^m$ be jointly independent copies of random variables $X$ and $Y$, respectively. For a fixed total number $n$ of random variables, we aim at maximising $M(k,m):= E \max \{X^1, ..., X^k, Y^1, >..., Y^{m}…

Finding an Approximate Longest Common Substring (ALCS) within a given set $S=\{s_1,s_2,\ldots,s_m\}$ of $m \ge 2$ strings is a key problem in computational biology, such as identifying related mutations across multiple genetic sequences. We…

In this paper, we study the behaviour of the longest common substring for random subshifts of finite type (for dynamicists) or of the longest common substring for random sequences in random environments (for probabilists). We prove that,…

The problem of the order of the fluctuation of the Longest Common Subsequence (LCS) of two independent sequences has been open for decades. There exist contradicting conjectures on the topic, due to Chvatal - Sankoff in 1975 and Waterman in…

The deletion distance between two binary words $u,v \in \{0,1\}^n$ is the smallest $k$ such that $u$ and $v$ share a common subsequence of length $n-k$. A set $C$ of binary words of length $n$ is called a $k$-deletion code if every pair of…

Let $\mathcal{A}$ be a finite subset of $\mathbb{N}$ including $0$ and $f_\mathcal{A}(n)$ be the number of ways to write $n=\sum_{i=0}^{\infty}\epsilon_i2^i$, where $\epsilon_i\in\mathcal{A}$. We consider asymptotics of the summatory…

Two series of binary observations $x_1,x_1,...$ and $y_1,y_2,...$ are presented: at each time $n\in\N$ we are given $x_n$ and $y_n$. It is assumed that the sequences are generated independently of each other by two B-processes. We are…

We give a sublinear quantum algorithm for the longest common substring (LCS) problem on the run-length encoded (RLE) inputs, under the assumption that the prefix-sums of the runs are given. Our algorithm costs $\tilde{O}(n^{5/6})\cdot…

For every positive integer $n$ and every $\delta \in [0,1]$, let $B(n, \delta)$ denote the probabilistic model in which a random set $A \subseteq \{1, \dots, n\}$ is constructed by choosing independently every element of $\{1, \dots, n\}$…

The skew of a binary string is the difference between the number of zeroes and the number of ones, while the length of the string is the sum of these two numbers. We consider certain suffixes of the lexicographically-least de Bruijn…

Longitudinal studies of a binary outcome are common in the health, social, and behavioral sciences. In general, a feature of random effects logistic regression models for longitudinal binary data is that the marginal functional form, when…

We consider a general class of super-additive scores measuring the similarity of two independent sequences of $n$ i.i.d. letters from a finite alphabet. Our object of interest is the mean score by letter $l_n$. By the subadditivity $l_n$ is…

We study the binary Ehrenfeucht Mycielski sequence seeking a balance between the number of occurrences of different binary strings. There have been numerous attempts to prove the balance conjecture of the sequence, which roughly states that…

The length is(w) of the longest increasing subsequence of a permutation w in the symmetric group S_n has been the object of much investigation. We develop comparable results for the length as(w) of the longest alternating subsequence of w,…