This module defines concrete subclasses for the abstract character matrix components that all character matrices must implement. The subclasses defined here apply to amino acid character data. In a verbose notation, this data is represented as the "state" attribute which references an explicitly defined state (either fundamental or ambiguous). In a compact notation, the same data is represented as a sequence of tokens (whitespace is allowed but has no meaning). The AAToken simple type is a restriction of AbstractSymbol that defines an IUPAC single character amino acid symbol. A concrete implementation of the AbstractChar element. The AAFormat class is the container of amino acid column definitions. A container for a set of states. The AAPolymorphicStateSet defines a polymorphic ambiguity mapping. The AAUncertainStateSet defines an uncertain ambiguity mapping. An IUPAC ambiguity mapping. This is a concrete implementation of the state element, which requires a symbol element, in this case restricted to AAToken, i.e. a single IUPAC amino acid symbol, and optional mapping elements to refer to other states. This is a single cell in a matrix containing an amino acid observation. This is a simple type that specifies a sequence of amino acid characters, following IUPAC single character symbols for aa (and ambiguities). This is a row in a matrix of amino acid data containing raw sequence data. This is a row in a matrix of amino acid data containing granular observations. A matrix of rows with amino acid data as sequence strings. A matrix of rows with single character observations. An amino acid characters block consisting of sequences preceded by metadata. An amino acid characters block consisting of granular cells preceded by metadata.