// SPDX-FileCopyrightText: 2006-2024 Knut Reinert & Freie Universität Berlin
// SPDX-FileCopyrightText: 2016-2024 Knut Reinert & MPI für molekulare Genetik
// SPDX-License-Identifier: CC0-1.0

#include <span>

#include <seqan3/alphabet/nucleotide/dna4.hpp>
#include <seqan3/core/debug_stream.hpp>
#include <seqan3/search/fm_index/fm_index.hpp>
#include <seqan3/search/search.hpp>

int main()
{
    using namespace seqan3::literals;

    seqan3::dna4_vector text{
        "CGCTGTCTGAAGGATGAGTGTCAGCCAGTGTAACCCGATGAGCTACCCAGTAGTCGAACTGGGCCAGACAACCCGGCGCTAATGCACTCA"_dna4};
    seqan3::fm_index index{text};

    seqan3::configuration const cfg = seqan3::search_cfg::max_error_substitution{seqan3::search_cfg::error_count{1}};

    seqan3::debug_stream << search("GCT"_dna4, index, cfg) << '\n';
}
