{
    "type": "genome",
    "identifier": "GCF_001613305.1",
    "organism": "Nocardia vaccinii NBRC 15922",
    "title": "Nocardia vaccinii NBRC 15922",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "National Institute of Technology and Evaluation",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001613305.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMD00040668",
        "wgs_master": "BDCC00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1210098",
        "species_taxid": "1822",
        "organism_name": "Nocardia vaccinii NBRC 15922",
        "infraspecific_name": "strain=NBRC 15922",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2016/04/01",
        "asm_name": "ASM161330v1",
        "asm_submitter": "National Institute of Technology and Evaluation",
        "gbrs_paired_asm": "GCA_001613305.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/613/305/GCF_001613305.1_ASM161330v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "9224040",
        "genome_size_ungapped": "9224040",
        "gc_percent": "66.500000",
        "replicon_count": "0",
        "scaffold_count": "141",
        "contig_count": "141",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_001613305.1-RS_2024_09_09",
        "annotation_date": "2024-09-09",
        "total_gene_count": "8449",
        "protein_coding_gene_count": "8199",
        "non_coding_gene_count": "56",
        "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 vaccinii NBRC 15922"
        ],
        "sample_taxid": [
            "1210098"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "2.540 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 99.54,
        "contamination": 1.39,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "9224040",
        "Number of Sequences": "141",
        "Longest Sequences (bp)": "593125",
        "N50 (bp)": "140170",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "66.7",
        "Number of CDSs": "8448",
        "Average Protein Length": "311.9",
        "Coding Ratio (%)": "85.7",
        "Number of rRNAs": "3",
        "Number of tRNAs": "54",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Nocardia vaccinii",
                "strain": "strain=NBRC 15922",
                "accession": "GCA_001613305.1",
                "taxid": 1822,
                "species_taxid": 1822,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 3002,
                "total_fragments": 3007,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Nocardia jiangxiensis",
                "strain": "strain=NBRC 101359",
                "accession": "GCA_000308615.1",
                "taxid": 282685,
                "species_taxid": 282685,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.2733,
                "matched_fragments": 2133,
                "total_fragments": 3007,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia coffeae",
                "strain": "strain=CA2R105",
                "accession": "GCA_019890715.1",
                "taxid": 2873381,
                "species_taxid": 2873381,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.0232,
                "matched_fragments": 2207,
                "total_fragments": 3007,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia miyunensis",
                "strain": "strain=NBRC 108239",
                "accession": "GCA_001613065.1",
                "taxid": 282684,
                "species_taxid": 282684,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.6667,
                "matched_fragments": 2042,
                "total_fragments": 3007,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia macrotermitis",
                "strain": "strain=RB20",
                "accession": "GCA_009604405.1",
                "taxid": 2585198,
                "species_taxid": 2585198,
                "relation_to_type": "type",
                "validated": true,
                "ani": 87.1531,
                "matched_fragments": 1946,
                "total_fragments": 3007,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia albiluteola",
                "strain": "strain=NEAU-G5",
                "accession": "GCA_018860155.1",
                "taxid": 2842303,
                "species_taxid": 2842303,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.4212,
                "matched_fragments": 1525,
                "total_fragments": 3007,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 99.54,
            "contamination": 1.39,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001613305.1",
                "gtdb_species": "s__Nocardia vaccinii",
                "ani": 100.0,
                "matched_fragments": 3002,
                "total_fragments": 3007,
                "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": "conclusive"
            },
            {
                "accession": "GCF_000308615.1",
                "gtdb_species": "s__Nocardia jiangxiensis",
                "ani": 89.274,
                "matched_fragments": 2133,
                "total_fragments": 3007,
                "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_001613065.1",
                "gtdb_species": "s__Nocardia miyunensis",
                "ani": 88.6843,
                "matched_fragments": 2038,
                "total_fragments": 3007,
                "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_009604405.1",
                "gtdb_species": "s__Nocardia sp009604405",
                "ani": 87.1534,
                "matched_fragments": 1947,
                "total_fragments": 3007,
                "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_018860155.1",
                "gtdb_species": "s__Nocardia sp018860155",
                "ani": 82.4004,
                "matched_fragments": 1527,
                "total_fragments": 3007,
                "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_013186535.1",
                "gtdb_species": "s__Nocardia terpenica",
                "ani": 81.0744,
                "matched_fragments": 1248,
                "total_fragments": 3007,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.12",
                "min_intra_species_ani": "95.64",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.79",
                "num_clustered_genomes": 9,
                "status": "-"
            },
            {
                "accession": "GCF_000526215.1",
                "gtdb_species": "s__Nocardia sp000526215",
                "ani": 80.7429,
                "matched_fragments": 1319,
                "total_fragments": 3007,
                "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_000523235.1",
                "gtdb_species": "s__Nocardia nova_A",
                "ani": 80.5408,
                "matched_fragments": 1242,
                "total_fragments": 3007,
                "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_015354405.1",
                "gtdb_species": "s__Nocardia sp015354405",
                "ani": 80.4748,
                "matched_fragments": 1193,
                "total_fragments": 3007,
                "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": -0.223,
        "cell_length": 0.046,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "optimum_tmp": 30.56,
        "optimum_ph": 7.496,
        "genome_size": 9220336.5,
        "gc_content": 66.74,
        "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",
        "vaccinii",
        "NBRC",
        "15922"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}