{
    "type": "genome",
    "identifier": "GCF_000009965.1",
    "organism": "Thermococcus kodakarensis KOD1",
    "title": "Thermococcus kodakarensis KOD1",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Kyoto University, Japan",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000009965.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMD00061071",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "69014",
        "species_taxid": "311400",
        "organism_name": "Thermococcus kodakarensis KOD1",
        "infraspecific_name": "strain=KOD1",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2005/01/05",
        "asm_name": "ASM996v1",
        "asm_submitter": "Kyoto University, Japan",
        "gbrs_paired_asm": "GCA_000009965.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/009/965/GCF_000009965.1_ASM996v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "archaea",
        "genome_size": "2088737",
        "genome_size_ungapped": "2088737",
        "gc_percent": "52.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000009965.1-RS_2024_10_21",
        "annotation_date": "2024-10-21",
        "total_gene_count": "2359",
        "protein_coding_gene_count": "2290",
        "non_coding_gene_count": "53",
        "pubmed_id": "15710748"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2005-01-05",
    "dateModified": "2005-01-05",
    "datePublished": "2005-01-05",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Thermococcus kodakarensis KOD1"
        ],
        "sample_taxid": [
            "69014"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "0.594 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 95.83,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "2088737",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "2088737",
        "N50 (bp)": "2088737",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "52.0",
        "Number of CDSs": "2320",
        "Average Protein Length": "274.6",
        "Coding Ratio (%)": "91.5",
        "Number of rRNAs": "4",
        "Number of tRNAs": "44",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Thermococcus kodakarensis",
                "strain": "strain=KOD1",
                "accession": "GCA_000009965.1",
                "taxid": 311400,
                "species_taxid": 311400,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 696,
                "total_fragments": 696,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Thermococcus peptonophilus",
                "strain": "strain=OG-1",
                "accession": "GCA_001592435.1",
                "taxid": 53952,
                "species_taxid": 53952,
                "relation_to_type": "type",
                "validated": true,
                "ani": 89.0693,
                "matched_fragments": 507,
                "total_fragments": 696,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Thermococcus stetteri",
                "strain": "strain=DSM 5262",
                "accession": "GCA_017873335.1",
                "taxid": 49900,
                "species_taxid": 49900,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.7411,
                "matched_fragments": 506,
                "total_fragments": 696,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Thermococcus profundus",
                "strain": "strain=DT 5432",
                "accession": "GCA_002214585.1",
                "taxid": 49899,
                "species_taxid": 49899,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.2027,
                "matched_fragments": 380,
                "total_fragments": 696,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Thermococcus eurythermalis",
                "strain": "strain=A501",
                "accession": "GCA_000769655.1",
                "taxid": 1505907,
                "species_taxid": 1505907,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.1798,
                "matched_fragments": 371,
                "total_fragments": 696,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 95.83,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000009965.1",
                "gtdb_species": "s__Thermococcus kodakarensis",
                "ani": 100.0,
                "matched_fragments": 696,
                "total_fragments": 696,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota_B;c__Thermococci;o__Thermococcales;f__Thermococcaceae;g__Thermococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.75",
                "min_intra_species_ani": "97.75",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 2,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001592435.1",
                "gtdb_species": "s__Thermococcus peptonophilus",
                "ani": 89.0693,
                "matched_fragments": 507,
                "total_fragments": 696,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota_B;c__Thermococci;o__Thermococcales;f__Thermococcaceae;g__Thermococcus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.53",
                "min_intra_species_ani": "99.53",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_017873335.1",
                "gtdb_species": "s__Thermococcus stetteri",
                "ani": 85.7411,
                "matched_fragments": 506,
                "total_fragments": 696,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota_B;c__Thermococci;o__Thermococcales;f__Thermococcaceae;g__Thermococcus",
                "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_002214585.1",
                "gtdb_species": "s__Thermococcus profundus",
                "ani": 81.2199,
                "matched_fragments": 379,
                "total_fragments": 696,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota_B;c__Thermococci;o__Thermococcales;f__Thermococcaceae;g__Thermococcus",
                "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_012027595.1",
                "gtdb_species": "s__Thermococcus sp012027595",
                "ani": 81.1405,
                "matched_fragments": 353,
                "total_fragments": 696,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota_B;c__Thermococci;o__Thermococcales;f__Thermococcaceae;g__Thermococcus",
                "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": "GCA_015521605.1",
                "gtdb_species": "s__Thermococcus sp015521605",
                "ani": 79.4822,
                "matched_fragments": 297,
                "total_fragments": 696,
                "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota_B;c__Thermococci;o__Thermococcales;f__Thermococcaceae;g__Thermococcus",
                "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": 0.06,
        "cell_length": 0.06,
        "doubling_h": -0.025,
        "growth_tmp": 84.189,
        "optimum_tmp": 83.045,
        "optimum_ph": 7.116,
        "genome_size": 1965459.444,
        "gc_content": 50.932,
        "coding_genes": 2046.309,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 46.015,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.833,
        "range_salinity": 0.5,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 0.0,
        "thermophilic_range_tmp": 1.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 0.0,
        "coccus_cell_shape": 1.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Thermococcus",
        "kodakarensis",
        "KOD1"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}