def _run_tRNA_scan(fasta_file):
    """
    Run tRNA-scan-SE to predict tRNA
    """
    out_file = fasta_file + "_trnascan"
    se_file = fasta_file + "_second_str"
    cmd = "tRNAscan-SE -q -o {out_file} -f {se_file} {fasta_file}"
    run(cmd.format(**locals()))
    return out_file, se_file