{
    "type": "genome",
    "identifier": "GCF_000720425.1",
    "organism": "Nocardia rhamnosiphila NBRC 108938",
    "title": "Nocardia rhamnosiphila NBRC 108938",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Illinois",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000720425.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02645364",
        "wgs_master": "JOAJ00000000.1",
        "refseq_category": "na",
        "taxid": "1223547",
        "species_taxid": "426716",
        "organism_name": "Nocardia rhamnosiphila NBRC 108938",
        "infraspecific_name": "strain=NRRL B-24637",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2014/07/02",
        "asm_name": "ASM72042v1",
        "asm_submitter": "University of Illinois",
        "gbrs_paired_asm": "GCA_000720425.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/720/425/GCF_000720425.1_ASM72042v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "7663723",
        "genome_size_ungapped": "7663723",
        "gc_percent": "68.500000",
        "replicon_count": "0",
        "scaffold_count": "93",
        "contig_count": "93",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000720425.1-RS_2024_05_12",
        "annotation_date": "2024-05-12",
        "total_gene_count": "6964",
        "protein_coding_gene_count": "6785",
        "non_coding_gene_count": "55",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2014-07-02",
    "dateModified": "2014-07-02",
    "datePublished": "2014-07-02",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Nocardia rhamnosiphila NBRC 108938"
        ],
        "sample_taxid": [
            "1223547"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "South Africa: Cape Town"
        ],
        "sample_host_location_id": [],
        "data_size": "2.088 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 100.0,
        "contamination": 2.78,
        "strain_heterogeneity": 42.86,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "7663723",
        "Number of Sequences": "93",
        "Longest Sequences (bp)": "1924742",
        "N50 (bp)": "619336",
        "Gap Ratio (%)": "0.000052",
        "GCcontent (%)": "68.5",
        "Number of CDSs": "6981",
        "Average Protein Length": "317.3",
        "Coding Ratio (%)": "86.7",
        "Number of rRNAs": "4",
        "Number of tRNAs": "57",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Nocardia rhamnosiphila",
                "strain": "strain=NRRL B-24637",
                "accession": "GCA_000720425.1",
                "taxid": 426716,
                "species_taxid": 426716,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2525,
                "total_fragments": 2525,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Nocardia rhamnosiphila",
                "strain": "strain=NRRL B-24637",
                "accession": "GCA_000721005.1",
                "taxid": 426716,
                "species_taxid": 426716,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9956,
                "matched_fragments": 2516,
                "total_fragments": 2525,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Nocardia rhamnosiphila",
                "strain": "strain=NBRC 108938",
                "accession": "GCA_001613485.1",
                "taxid": 426716,
                "species_taxid": 426716,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9753,
                "matched_fragments": 2478,
                "total_fragments": 2525,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Nocardia sienata",
                "strain": "strain=NBRC 100364",
                "accession": "GCA_001613205.1",
                "taxid": 248552,
                "species_taxid": 248552,
                "relation_to_type": "type",
                "validated": true,
                "ani": 92.1001,
                "matched_fragments": 1892,
                "total_fragments": 2525,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia grenadensis",
                "strain": "strain=NBRC 108939",
                "accession": "GCA_001613445.1",
                "taxid": 931537,
                "species_taxid": 931537,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.9966,
                "matched_fragments": 1807,
                "total_fragments": 2525,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia testacea",
                "strain": "strain=NBRC 100365",
                "accession": "GCA_000308775.1",
                "taxid": 248551,
                "species_taxid": 248551,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.1967,
                "matched_fragments": 1941,
                "total_fragments": 2525,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 2.78,
            "strain_heterogeneity": 42.86
        },
        "gtdb_result": [
            {
                "accession": "GCF_000720425.1",
                "gtdb_species": "s__Nocardia rhamnosiphila",
                "ani": 100.0,
                "matched_fragments": 2525,
                "total_fragments": 2525,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001618425.1",
                "gtdb_species": "s__Nocardia fusca",
                "ani": 93.8393,
                "matched_fragments": 1997,
                "total_fragments": 2525,
                "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_001613205.1",
                "gtdb_species": "s__Nocardia sienata",
                "ani": 92.0956,
                "matched_fragments": 1893,
                "total_fragments": 2525,
                "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_001613445.1",
                "gtdb_species": "s__Nocardia grenadensis",
                "ani": 91.9934,
                "matched_fragments": 1808,
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                "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": "-"
            },
            {
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                "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_014645735.1",
                "gtdb_species": "s__Nocardia jinanensis",
                "ani": 87.2041,
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                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
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                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.97",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_001613245.1",
                "gtdb_species": "s__Nocardia speluncae",
                "ani": 82.7213,
                "matched_fragments": 1487,
                "total_fragments": 2525,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.223,
        "cell_length": 0.046,
        "doubling_h": null,
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        "optimum_tmp": 30.56,
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        "genome_size": 7709110.0,
        "gc_content": 68.006,
        "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": 0.098,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.882,
        "coccobacillus_cell_shape": 0.019,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Nocardia",
        "rhamnosiphila",
        "NBRC",
        "108938"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}