{
    "type": "genome",
    "identifier": "GCF_001612765.1",
    "organism": "Nocardia arthritidis NBRC 100137",
    "title": "Nocardia arthritidis NBRC 100137",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "National Institute of Technology and Evaluation",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001612765.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMD00040645",
        "wgs_master": "BDBB00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1210067",
        "species_taxid": "228602",
        "organism_name": "Nocardia arthritidis NBRC 100137",
        "infraspecific_name": "strain=NBRC 100137",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2016/04/01",
        "asm_name": "ASM161276v1",
        "asm_submitter": "National Institute of Technology and Evaluation",
        "gbrs_paired_asm": "GCA_001612765.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/612/765/GCF_001612765.1_ASM161276v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "7124189",
        "genome_size_ungapped": "7124189",
        "gc_percent": "68.500000",
        "replicon_count": "0",
        "scaffold_count": "113",
        "contig_count": "113",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_001612765.1-RS_2024_08_12",
        "annotation_date": "2024-08-12",
        "total_gene_count": "6626",
        "protein_coding_gene_count": "6424",
        "non_coding_gene_count": "58",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2016-04-01",
    "dateModified": "2016-04-01",
    "datePublished": "2016-04-01",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Nocardia arthritidis NBRC 100137"
        ],
        "sample_taxid": [
            "1210067"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Japan"
        ],
        "sample_host_location_id": [],
        "data_size": "1.949 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 98.61,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "7124189",
        "Number of Sequences": "113",
        "Longest Sequences (bp)": "316661",
        "N50 (bp)": "150833",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "68.5",
        "Number of CDSs": "6494",
        "Average Protein Length": "310.1",
        "Coding Ratio (%)": "84.8",
        "Number of rRNAs": "3",
        "Number of tRNAs": "56",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Nocardia arthritidis",
                "strain": "strain=NBRC 100137",
                "accession": "GCA_001612765.1",
                "taxid": 228602,
                "species_taxid": 228602,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2321,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia exalbida",
                "strain": "strain=NBRC 100660",
                "accession": "GCA_000308575.1",
                "taxid": 290231,
                "species_taxid": 290231,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.103,
                "matched_fragments": 1973,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia gamkensis",
                "strain": "strain=DSM 44956",
                "accession": "GCA_012396055.1",
                "taxid": 352869,
                "species_taxid": 352869,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.0976,
                "matched_fragments": 1997,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia gamkensis",
                "strain": "strain=NBRC 108242",
                "accession": "GCA_001612985.1",
                "taxid": 352869,
                "species_taxid": 352869,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.0741,
                "matched_fragments": 1972,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia gamkensis",
                "strain": "strain=NRRL B-24450",
                "accession": "GCA_013181665.1",
                "taxid": 352869,
                "species_taxid": 352869,
                "relation_to_type": "type",
                "validated": true,
                "ani": 95.0625,
                "matched_fragments": 1991,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia araoensis",
                "strain": "strain=NBRC 100135",
                "accession": "GCA_000308435.1",
                "taxid": 228600,
                "species_taxid": 228600,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.489,
                "matched_fragments": 1808,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia asiatica",
                "strain": "strain=NBRC 100129",
                "accession": "GCA_000308415.1",
                "taxid": 209252,
                "species_taxid": 209252,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.6875,
                "matched_fragments": 1789,
                "total_fragments": 2323,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 98.61,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001612765.1",
                "gtdb_species": "s__Nocardia arthritidis",
                "ani": 100.0,
                "matched_fragments": 2321,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 95.103,
                "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": "conclusive"
            },
            {
                "accession": "GCF_000308575.1",
                "gtdb_species": "s__Nocardia exalbida",
                "ani": 95.1135,
                "matched_fragments": 1972,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 96.7192,
                "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_001612985.1",
                "gtdb_species": "s__Nocardia gamkensis",
                "ani": 95.0846,
                "matched_fragments": 1971,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 96.7192,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_001613465.1",
                "gtdb_species": "s__Nocardia niwae",
                "ani": 89.8836,
                "matched_fragments": 1958,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "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_000308435.1",
                "gtdb_species": "s__Nocardia araoensis",
                "ani": 89.4786,
                "matched_fragments": 1809,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "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_015477775.1",
                "gtdb_species": "s__Nocardia abscessus_A",
                "ani": 89.4372,
                "matched_fragments": 1970,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "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_000308455.1",
                "gtdb_species": "s__Nocardia abscessus",
                "ani": 89.3867,
                "matched_fragments": 1878,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.07",
                "min_intra_species_ani": "95.78",
                "mean_intra_species_af": "0.84",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_013315795.1",
                "gtdb_species": "s__Nocardia barduliensis",
                "ani": 88.9599,
                "matched_fragments": 1802,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "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_009829295.1",
                "gtdb_species": "s__Nocardia sp009829295",
                "ani": 88.919,
                "matched_fragments": 1820,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.64",
                "min_intra_species_ani": "99.39",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_000308415.1",
                "gtdb_species": "s__Nocardia asiatica",
                "ani": 88.6734,
                "matched_fragments": 1792,
                "total_fragments": 2323,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "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": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": 0.146,
        "cell_length": 0.23,
        "doubling_h": null,
        "growth_tmp": 29.0,
        "optimum_tmp": 30.56,
        "optimum_ph": 7.496,
        "genome_size": 7118160.5,
        "gc_content": 68.46,
        "coding_genes": 6908.619,
        "rRNA16S_genes": 3.166,
        "tRNA_genes": 53.5,
        "gram_stain": 1.0,
        "sporulation": 0.833,
        "motility": 0.0,
        "range_salinity": 0.0,
        "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": 0.0,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 1.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Nocardia",
        "arthritidis",
        "NBRC",
        "100137"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}