25
Dec
2009
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Glossary

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F

F
Phenylalanine.
Fast Fourier Transform
A group of efficient algorithms for computing the discrete Fourier transform, which is an important step in signal processing and other related problems. It has been applied to protein sequence alignment by considering a sequence as a linear series of continuous variables representing physico-chemical properties of the underlying amino acids.
FASTA
Fast-All (pronounced fast-ay) a program for pairwise sequence alignment.
fecundity
A fitness component. The number of births or eggs per individual of a given genotype.
Felsenstein zone
A region of tree space where long branch attraction may occur.
fertility
A fitness component. The number of live offspring per individual of a given genotype.
FFT
(see Fast Fourier Transform)
fitness (Darwinian fitness)
A measure of the relative survival and reproductive success of an individual or a genotype. The relative contribution of an individual or a genotype to future generations.
fixation probability
The probability that a particular allele will become fixed in a population.
fixation time
The time it takes for a mutant allele to become fixed in a population.
flanking sequence
Untranscribed sequences at the 5' or 3' terminal of transcribed genes.
foldback DNA
DNA that contains a perfect or nearly perfect palindrome and is able to form a hairpin-like structure by folding back on itself when single-stranded.
fourfold degenerate site
A nucleotide site within a codon at which all possible substitutions are synonymous.
frameshift mutation
A mutation disturbing the reading frame of a protein-coding gene. A deletion or an insertion of a DNA segment that is not three nucleotides or a multiple of three.
frameshifted protein
A protein encoded entirely or in part by a reading frame different from the original or main reading frame of a gene.
functional constraint (selective constraint)
The degree of intolerance characteristic of a site or a locus toward nucleotide substitutions.
functional domain (domain)
A well-defined region within a protein that can perform a specific function. May not consist of a continuous stretch of amino acids, although it almost always consists of amino acids that are adjacent to each other as far as the tertiary structure of the protein is concerned.