{
    "type": "genome",
    "identifier": "GCF_010731775.1",
    "organism": "Mycobacterium mantenii",
    "title": "Mycobacterium mantenii",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Department of Infection Metagenomics, Osaka University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_010731775.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMD00153211",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "560555",
        "species_taxid": "560555",
        "organism_name": "Mycobacterium mantenii",
        "infraspecific_name": "strain=JCM 18113",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/02/06",
        "asm_name": "ASM1073177v1",
        "asm_submitter": "Department of Infection Metagenomics, Osaka University",
        "gbrs_paired_asm": "GCA_010731775.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/731/775/GCF_010731775.1_ASM1073177v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "6185541",
        "genome_size_ungapped": "6185541",
        "gc_percent": "67.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_010731775.1-RS_2024_12_13",
        "annotation_date": "2024-12-13",
        "total_gene_count": "5811",
        "protein_coding_gene_count": "5529",
        "non_coding_gene_count": "54",
        "pubmed_id": "31287781"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-02-06",
    "dateModified": "2020-02-06",
    "datePublished": "2020-02-06",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Mycobacterium mantenii"
        ],
        "sample_taxid": [
            "560555"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "not applicable"
        ],
        "sample_host_location_id": [],
        "data_size": "1.696 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 100.0,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "6185541",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "6185541",
        "N50 (bp)": "6185541",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "66.9",
        "Number of CDSs": "5839",
        "Average Protein Length": "321.2",
        "Coding Ratio (%)": "91.0",
        "Number of rRNAs": "3",
        "Number of tRNAs": "53",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Mycobacterium mantenii",
                "strain": "strain=JCM 18113",
                "accession": "GCA_010731775.1",
                "taxid": 560555,
                "species_taxid": 560555,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2061,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Mycobacterium mantenii",
                "strain": "strain=DSM 45255",
                "accession": "GCA_002086335.1",
                "taxid": 560555,
                "species_taxid": 560555,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9635,
                "matched_fragments": 1974,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Mycobacterium colombiense",
                "strain": "strain=CECT 3035",
                "accession": "GCA_002105755.1",
                "taxid": 339268,
                "species_taxid": 339268,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 89.4568,
                "matched_fragments": 1557,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium colombiense",
                "strain": "strain=CECT 3035",
                "accession": "GCA_000222105.4",
                "taxid": 339268,
                "species_taxid": 339268,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 89.4467,
                "matched_fragments": 1562,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium arosiense",
                "strain": "strain=DSM 45069",
                "accession": "GCA_002086125.1",
                "taxid": 425468,
                "species_taxid": 425468,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.2652,
                "matched_fragments": 1412,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium intracellulare",
                "strain": "strain=ATCC 13950",
                "accession": "GCA_000277125.1",
                "taxid": 1767,
                "species_taxid": 1767,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 86.9734,
                "matched_fragments": 1495,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium intracellulare",
                "strain": "strain=ATCC 13950",
                "accession": "GCA_023278525.1",
                "taxid": 1767,
                "species_taxid": 1767,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 86.9593,
                "matched_fragments": 1496,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium paraintracellulare",
                "strain": "strain=JCM 30622",
                "accession": "GCA_010731935.1",
                "taxid": 1138383,
                "species_taxid": 1138383,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 86.8778,
                "matched_fragments": 1527,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium marseillense",
                "strain": "strain=JCM 17324",
                "accession": "GCA_010731675.1",
                "taxid": 701042,
                "species_taxid": 701042,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.7286,
                "matched_fragments": 1489,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mycobacterium marseillense",
                "strain": "strain=DSM 45437",
                "accession": "GCA_002086345.1",
                "taxid": 701042,
                "species_taxid": 701042,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.7274,
                "matched_fragments": 1453,
                "total_fragments": 2061,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_010731775.1",
                "gtdb_species": "s__Mycobacterium mantenii",
                "ani": 100.0,
                "matched_fragments": 2061,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.19",
                "min_intra_species_ani": "95.22",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 6,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001665835.1",
                "gtdb_species": "s__Mycobacterium colombiense_A",
                "ani": 89.9502,
                "matched_fragments": 1540,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_001953985.1",
                "gtdb_species": "s__Mycobacterium colombiense_B",
                "ani": 89.8333,
                "matched_fragments": 1547,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.54",
                "min_intra_species_ani": "96.91",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 12,
                "status": "-"
            },
            {
                "accession": "GCF_001672755.1",
                "gtdb_species": "s__Mycobacterium colombiense_C",
                "ani": 89.7416,
                "matched_fragments": 1529,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_002104765.1",
                "gtdb_species": "s__Mycobacterium vulneris",
                "ani": 89.6737,
                "matched_fragments": 1604,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_001665875.1",
                "gtdb_species": "s__Mycobacterium sp001665875",
                "ani": 89.5931,
                "matched_fragments": 1489,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_002105755.1",
                "gtdb_species": "s__Mycobacterium colombiense",
                "ani": 89.4656,
                "matched_fragments": 1556,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.60",
                "min_intra_species_ani": "97.75",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_003284975.1",
                "gtdb_species": "s__Mycobacterium europaeum_A",
                "ani": 88.7077,
                "matched_fragments": 1417,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.84",
                "min_intra_species_ani": "95.70",
                "mean_intra_species_af": "0.84",
                "min_intra_species_af": "0.79",
                "num_clustered_genomes": 6,
                "status": "-"
            },
            {
                "accession": "GCF_001667145.1",
                "gtdb_species": "s__Mycobacterium sp001667145",
                "ani": 88.4633,
                "matched_fragments": 1419,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_002086125.1",
                "gtdb_species": "s__Mycobacterium arosiense",
                "ani": 88.2605,
                "matched_fragments": 1413,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_001672975.1",
                "gtdb_species": "s__Mycobacterium sp001672975",
                "ani": 88.0481,
                "matched_fragments": 1444,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_001667315.1",
                "gtdb_species": "s__Mycobacterium sp001667315",
                "ani": 87.0266,
                "matched_fragments": 1422,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_010731675.1",
                "gtdb_species": "s__Mycobacterium marseillense",
                "ani": 86.7197,
                "matched_fragments": 1491,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.64",
                "min_intra_species_ani": "95.51",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 6,
                "status": "-"
            },
            {
                "accession": "GCF_002102255.1",
                "gtdb_species": "s__Mycobacterium nebraskense",
                "ani": 84.4386,
                "matched_fragments": 1444,
                "total_fragments": 2061,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.58",
                "min_intra_species_ani": "99.42",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 4,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.117,
        "cell_length": 0.096,
        "doubling_h": 1.493,
        "growth_tmp": 37.0,
        "optimum_tmp": 36.0,
        "optimum_ph": 6.706,
        "genome_size": 5658460.823,
        "gc_content": 66.422,
        "coding_genes": 4941.245,
        "rRNA16S_genes": 1.504,
        "tRNA_genes": 48.184,
        "gram_stain": 1.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": 0.2,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 1.0,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Mycobacterium",
        "mantenii"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}