import { CandidateType } from './types';
/** enum type to simplify setting "user-friendly" notation if necessary */
export declare enum NOTATION {
    FASTA = "fasta",
    SEPARATOR = "separator",
    HELM = "helm",
    CUSTOM = "custom",
    BILN = "biln"
}
export declare const enum ALIGNMENT {
    SEQ_MSA = "SEQ.MSA",
    SEQ = "SEQ"
}
export declare enum ALPHABET {
    DNA = "DNA",
    RNA = "RNA",
    PT = "PT",
    /** Unknown */
    UN = "UN"
}
export declare enum TAGS {
    aligned = "aligned",
    alphabet = "alphabet",
    alphabetSize = ".alphabetSize",
    alphabetIsMultichar = ".alphabetIsMultichar",
    separator = "separator",
    isHelmCompatible = ".isHelmCompatible",
    positionNames = ".positionNames",
    positionLabels = ".positionLabels",
    regions = ".regions",
    positionShift = ".positionShift",
    selectedPosition = ".selectedPosition",
    polymerTypeColumnName = ".polymerTypeColumnName",
    annotations = ".annotations",
    numberingScheme = ".numberingScheme",
    annotationColumnName = ".annotationColumnName"
}
export { TAGS as BioTags };
export declare const positionSeparator: string;
export declare const monomerRe: RegExp;
export declare const helmRe: RegExp;
export declare const helmPp1Re: RegExp;
export declare const Alphabets: {
    fasta: {
        peptide: Set<string>;
        dna: Set<string>;
        rna: Set<string>;
    };
};
export declare const candidateAlphabets: CandidateType[];
/** Canonical gap symbol */
export declare const GAP_SYMBOL: string;
export declare const GapOriginals: {
    [units: string]: string;
};
export declare const MONOMER_MOTIF_SPLITTER = " , ";
/** Tag on Monomer columns storing the nqName of a function that returns an IMonomerCanonicalizer.
 *  The `.%` prefix ensures this tag is persisted with projects. */
export declare const MONOMER_CANONICALIZER_FUNC_TAG = ".%monomer-canonicalizer-func";
/** Column temp key for the cached IMonomerCanonicalizer instance */
export declare const MONOMER_CANONICALIZER_TEMP = "monomer-canonicalizer";
export declare const NOTATION_PROVIDER_CONSTRUCTOR_ROLE = "notationProviderConstructor";
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