Related papers: Variance of Longest Run Duration in a Random Bitst…
A binary string transmitted via a memoryless i.i.d. deletion channel is received as a subsequence of the original input. From this, one obtains a posterior distribution on the channel input, corresponding to a set of candidate…
We prove that for every integer $n > 0$ and for every alphabet $\Sigma_k$ of size $k \geq 3$, there exists a necklace of length $n$ whose Burrows-Wheeler Transform (BWT) is completely unclustered, i.e., it consists of exactly $n$ runs with…
Let $A_n=(a_0,a_1,\dots,a_{n-1})$ be drawn uniformly at random from $\{-1,+1\}^n$ and define \[ M(A_n)=\max_{0<u<n}\,\Bigg|\sum_{j=0}^{n-u-1}a_ja_{j+u}\Bigg|\quad\text{for $n>1$}. \] It is proved that $M(A_n)/\sqrt{n\log n}$ converges in…
A border of a string is a non-empty prefix of the string that is also a suffix of the string, and a string is unbordered if it has no border other than itself. Loptev, Kucherov, and Starikovskaya [CPM 2015] conjectured the following: If we…
The Burrows-Wheeler-Transform (BWT), a reversible string transformation, is one of the fundamental components of many current data structures in string processing. It is central in data compression, as well as in efficient query algorithms…
We study the distributions of waiting times in variations of the $q$-sooner and later waiting time problem. One variation imposes length and frequency quotas on the runs of successes and failures. Another case considers binary trials for…
In many circumstances, given an ordered sequence of one or more types of elements or symbols, the objective is to determine the existence of any randomness in the occurrence of one specific element, say type 1. This method can help detect…
A run is an inclusion maximal occurrence in a string (as a subinterval) of a repetition $v$ with a period $p$ such that $2p \le |v|$. The exponent of a run is defined as $|v|/p$ and is $\ge 2$. We show new bounds on the maximal sum of…
Let $n$ be a positive integer and let $S$ be a sequence of $n$ integers in the interval $[0,n-1]$. If there is an $r$ such that any nonempty subsequence with sum $\equiv 0$ $\pmod n$ has length $=r,$ then $S$ has at most two distinct…
This paper performs the analysis necessary to bound the running time of known, efficient algorithms for generating all longest common subsequences. That is, we bound the running time as a function of input size for algorithms with time…
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…
We study extremal statistics and return intervals in stationary long-range correlated sequences for which the underlying probability density function is bounded and uniform. The extremal statistics we consider e.g., maximum relative to…
The longest common substring with $k$-mismatches problem is to find, given two strings $S_1$ and $S_2$, a longest substring $A_1$ of $S_1$ and $A_2$ of $S_2$ such that the Hamming distance between $A_1$ and $A_2$ is $\le k$. We introduce a…
When considering binary strings, it's natural to wonder how many distinct subsequences might exist in a given string. Given that there is an existing algorithm which provides a straightforward way to compute the number of distinct…
In this paper, we study for the first time the Diverse Longest Common Subsequences (LCSs) problem under Hamming distance. Given a set of a constant number of input strings, the problem asks to decide if there exists some subset $\mathcal X$…
Distribution of loops in a one-dimensional random walk (RW), or, equivalently, neutral segments in a sequence of positive and negative charges is important for understanding the low energy states of randomly charged polymers. We investigate…
We study the setting in which the bits of an unknown infinite binary sequence x are revealed sequentially to an observer. We show that very limited assumptions about x allow one to make successful predictions about unseen bits of x. First,…
The paperfolding sequences form an uncountable class of infinite sequences over the alphabet $\{ -1, 1 \}$ that describe the sequence of folds arising from iterated folding of a piece of paper, followed by unfolding. In this note we observe…
This paper deals with the comparison of several stationary processes with unequal sample sizes. We provide a detailed theoretical framework on the testing problem for equality of spectral densities in the bivariate case, after which the…
Consider a string of $n$ positions, i.e. a discrete string of length $n$. Units of length $k$ are placed at random on this string in such a way that they do not overlap, and as often as possible, i.e. until all spacings between neighboring…