{
    "type": "genome",
    "identifier": "GCF_013839485.1",
    "organism": "Nocardia gipuzkoensis",
    "title": "Nocardia gipuzkoensis",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Leibniz Institute DSMZ German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_013839485.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN15424934",
        "wgs_master": "JACBNG000000000.1",
        "refseq_category": "na",
        "taxid": "2749991",
        "species_taxid": "2749991",
        "organism_name": "Nocardia gipuzkoensis",
        "infraspecific_name": "strain=234509",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/07/28",
        "asm_name": "ASM1383948v1",
        "asm_submitter": "Leibniz Institute DSMZ German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany",
        "gbrs_paired_asm": "GCA_013839485.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/839/485/GCF_013839485.1_ASM1383948v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "8073088",
        "genome_size_ungapped": "8073088",
        "gc_percent": "68.500000",
        "replicon_count": "0",
        "scaffold_count": "208",
        "contig_count": "208",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_013839485.1-RS_2024_08_05",
        "annotation_date": "2024-08-05",
        "total_gene_count": "7451",
        "protein_coding_gene_count": "7224",
        "non_coding_gene_count": "59",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-07-28",
    "dateModified": "2020-07-28",
    "datePublished": "2020-07-28",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Nocardia gipuzkoensis"
        ],
        "sample_taxid": [
            "2749991"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Spain"
        ],
        "sample_host_location_id": [],
        "data_size": "2.215 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 100.0,
        "contamination": 3.24,
        "strain_heterogeneity": 66.67,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "8073088",
        "Number of Sequences": "208",
        "Longest Sequences (bp)": "293147",
        "N50 (bp)": "108726",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "68.5",
        "Number of CDSs": "7325",
        "Average Protein Length": "313.2",
        "Coding Ratio (%)": "85.3",
        "Number of rRNAs": "3",
        "Number of tRNAs": "66",
        "Number of CRISPRs": "2"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Nocardia gipuzkoensis",
                "strain": "strain=234509",
                "accession": "GCA_013839485.1",
                "taxid": 2749991,
                "species_taxid": 2749991,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2600,
                "total_fragments": 2610,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia abscessus",
                "strain": "strain=NBRC 100374",
                "accession": "GCA_000308455.1",
                "taxid": 120957,
                "species_taxid": 120957,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 95.9624,
                "matched_fragments": 2227,
                "total_fragments": 2610,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia abscessus",
                "strain": "strain=FDAARGOS_1596",
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                "species_taxid": 120957,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 95.9591,
                "matched_fragments": 2295,
                "total_fragments": 2610,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Nocardia barduliensis",
                "strain": "strain=335427",
                "accession": "GCA_013315795.1",
                "taxid": 2736643,
                "species_taxid": 2736643,
                "relation_to_type": "type",
                "validated": true,
                "ani": 91.6564,
                "matched_fragments": 2025,
                "total_fragments": 2610,
                "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": 91.0091,
                "matched_fragments": 1897,
                "total_fragments": 2610,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "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": 89.4242,
                "matched_fragments": 2011,
                "total_fragments": 2610,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Nocardia gamkensis",
                "strain": "strain=NBRC 108242",
                "accession": "GCA_001612985.1",
                "taxid": 352869,
                "species_taxid": 352869,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.4234,
                "matched_fragments": 1993,
                "total_fragments": 2610,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
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            "strain_heterogeneity": 66.67
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        "gtdb_result": [
            {
                "accession": "GCF_000308455.1",
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                "matched_fragments": 2229,
                "total_fragments": 2610,
                "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": "conclusive"
            },
            {
                "accession": "GCF_015477775.1",
                "gtdb_species": "s__Nocardia abscessus_A",
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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_013315795.1",
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                "ani": 91.6514,
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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_000308415.1",
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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",
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                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_009829295.1",
                "gtdb_species": "s__Nocardia sp009829295",
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                "matched_fragments": 1943,
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                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
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            },
            {
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                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia",
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            },
            {
                "accession": "GCF_001612765.1",
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            },
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            },
            {
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                "num_clustered_genomes": 1,
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            },
            {
                "accession": "GCF_001612785.1",
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                "matched_fragments": 1884,
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                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 2,
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        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.223,
        "cell_length": 0.046,
        "doubling_h": null,
        "growth_tmp": 29.192,
        "optimum_tmp": 30.56,
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        "genome_size": 7903167.49,
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        "tRNA_genes": 53.5,
        "gram_stain": 1.0,
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        "bacillus_cell_shape": 0.098,
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    "_genome_taxon": [
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        "gipuzkoensis"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}