ClustalClustal is a series of widely used computer programs used in bioinformatics for multiple sequence alignment. There have been many versions of Clustal over the development of the algorithm that are listed below. The analysis of each tool and its algorithm is also detailed in their respective categories. Available operating systems listed in the sidebar are a combination of the software availability and may not be supported for every current version of the Clustal tools.
Base pairA base pair (bp) is a fundamental unit of double-stranded nucleic acids consisting of two nucleobases bound to each other by hydrogen bonds. They form the building blocks of the DNA double helix and contribute to the folded structure of both DNA and RNA. Dictated by specific hydrogen bonding patterns, "Watson–Crick" (or "Watson–Crick–Franklin") base pairs (guanine–cytosine and adenine–thymine) allow the DNA helix to maintain a regular helical structure that is subtly dependent on its nucleotide sequence.
Register fileA register file is an array of processor registers in a central processing unit (CPU). Register banking is the method of using a single name to access multiple different physical registers depending on the operating mode. Modern integrated circuit-based register files are usually implemented by way of fast static RAMs with multiple ports. Such RAMs are distinguished by having dedicated read and write ports, whereas ordinary multiported SRAMs will usually read and write through the same ports.
Algebraic extensionIn mathematics, an algebraic extension is a field extension L/K such that every element of the larger field L is algebraic over the smaller field K; that is, every element of L is a root of a non-zero polynomial with coefficients in K. A field extension that is not algebraic, is said to be transcendental, and must contain transcendental elements, that is, elements that are not algebraic. The algebraic extensions of the field of the rational numbers are called algebraic number fields and are the main objects of study of algebraic number theory.
Separable extensionIn field theory, a branch of algebra, an algebraic field extension is called a separable extension if for every , the minimal polynomial of over F is a separable polynomial (i.e., its formal derivative is not the zero polynomial, or equivalently it has no repeated roots in any extension field). There is also a more general definition that applies when E is not necessarily algebraic over F. An extension that is not separable is said to be inseparable.
Reduced instruction set computerIn computer engineering, a reduced instruction set computer (RISC) is a computer architecture designed to simplify the individual instructions given to the computer to accomplish tasks. Compared to the instructions given to a complex instruction set computer (CISC), a RISC computer might require more instructions (more code) in order to accomplish a task because the individual instructions are written in simpler code.
AttractorIn the mathematical field of dynamical systems, an attractor is a set of states toward which a system tends to evolve, for a wide variety of starting conditions of the system. System values that get close enough to the attractor values remain close even if slightly disturbed. In finite-dimensional systems, the evolving variable may be represented algebraically as an n-dimensional vector. The attractor is a region in n-dimensional space.
Field extensionIn mathematics, particularly in algebra, a field extension is a pair of fields such that the operations of K are those of L restricted to K. In this case, L is an extension field of K and K is a subfield of L. For example, under the usual notions of addition and multiplication, the complex numbers are an extension field of the real numbers; the real numbers are a subfield of the complex numbers. Field extensions are fundamental in algebraic number theory, and in the study of polynomial roots through Galois theory, and are widely used in algebraic geometry.
Logistic mapThe logistic map is a polynomial mapping (equivalently, recurrence relation) of degree 2, often referred to as an archetypal example of how complex, chaotic behaviour can arise from very simple nonlinear dynamical equations. The map was popularized in a 1976 paper by the biologist Robert May, in part as a discrete-time demographic model analogous to the logistic equation written down by Pierre François Verhulst. Mathematically, the logistic map is written where xn is a number between zero and one, which represents the ratio of existing population to the maximum possible population.
Phase spaceIn dynamical systems theory and control theory, a phase space or state space is a space in which all possible "states" of a dynamical system or a control system are represented, with each possible state corresponding to one unique point in the phase space. For mechanical systems, the phase space usually consists of all possible values of position and momentum variables. It is the direct product of direct space and reciprocal space. The concept of phase space was developed in the late 19th century by Ludwig Boltzmann, Henri Poincaré, and Josiah Willard Gibbs.
