import { SequenceAlignments, SequenceAnnotations } from "@rcsb/rcsb-api-tools/lib/RcsbGraphQL/Types/Borrego/GqlTypes";
export declare class GroupGapLessTransformer {
    private readonly gapLessReference;
    private refLength;
    private processAlignments;
    gapLessAlignments(alignments: SequenceAlignments): void;
    gapLessFeatures(annotations: Array<SequenceAnnotations>): void;
}