{
    "type": "genome",
    "identifier": "GCF_900177335.1",
    "organism": "Kocuria marina subsp. indica",
    "title": "Kocuria marina subsp. indica",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE - JOINT GENOME INSTITUTE",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_900177335.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN06296028",
        "wgs_master": "FXAC00000000.1",
        "refseq_category": "na",
        "taxid": "1049583",
        "species_taxid": "223184",
        "organism_name": "Kocuria marina subsp. indica",
        "infraspecific_name": "strain=NIO-1021",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/04/19",
        "asm_name": "IMG-taxon 2708742531 annotated assembly",
        "asm_submitter": "DOE - JOINT GENOME INSTITUTE",
        "gbrs_paired_asm": "GCA_900177335.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/177/335/GCF_900177335.1_IMG-taxon_2708742531_annotated_assembly",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2876326",
        "genome_size_ungapped": "2876326",
        "gc_percent": "69.000000",
        "replicon_count": "0",
        "scaffold_count": "48",
        "contig_count": "48",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_900177335.1-RS_2024_12_14",
        "annotation_date": "2024-12-14",
        "total_gene_count": "2647",
        "protein_coding_gene_count": "2518",
        "non_coding_gene_count": "55",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-04-19",
    "dateModified": "2017-04-19",
    "datePublished": "2017-04-19",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Kocuria marina subsp. indica"
        ],
        "sample_taxid": [
            "1049583"
        ],
        "sample_host_organism": [
            "not applicable"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "0.786 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 100.0,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "2876326",
        "Number of Sequences": "48",
        "Longest Sequences (bp)": "343821",
        "N50 (bp)": "135131",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "68.9",
        "Number of CDSs": "2635",
        "Average Protein Length": "323.6",
        "Coding Ratio (%)": "88.9",
        "Number of rRNAs": "2",
        "Number of tRNAs": "48",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Kocuria indica",
                "strain": "strain=NIO-1021",
                "accession": "GCA_900177335.1",
                "taxid": 1049583,
                "species_taxid": 1049583,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 937,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Kocuria indica",
                "strain": "strain=DSM 25126",
                "accession": "GCA_002237805.1",
                "taxid": 1049583,
                "species_taxid": 1049583,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 937,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Kocuria indica",
                "strain": "strain=NIO-1021",
                "accession": "GCA_003667205.1",
                "taxid": 1049583,
                "species_taxid": 1049583,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9807,
                "matched_fragments": 928,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Kocuria tytonis",
                "strain": "strain=442",
                "accession": "GCA_003226895.2",
                "taxid": 2054280,
                "species_taxid": 2054280,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.9912,
                "matched_fragments": 715,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kocuria rhizophila",
                "strain": "strain=TA68",
                "accession": "GCA_003667225.1",
                "taxid": 72000,
                "species_taxid": 72000,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.7466,
                "matched_fragments": 629,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kocuria varians",
                "strain": "strain=NBRC 15358",
                "accession": "GCA_006539885.1",
                "taxid": 1272,
                "species_taxid": 1272,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.5599,
                "matched_fragments": 696,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kocuria tytonicola",
                "strain": "strain=DSM 104133",
                "accession": "GCA_003687455.1",
                "taxid": 2055946,
                "species_taxid": 2055946,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.439,
                "matched_fragments": 610,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Arthrobacter sedimenti",
                "strain": "strain=MIC A30",
                "accession": "GCA_011750795.2",
                "taxid": 2694931,
                "species_taxid": 2694931,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4275,
                "matched_fragments": 188,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Arthrobacter jiangjiafuii",
                "strain": "strain=zg-ZUI227",
                "accession": "GCA_017898065.1",
                "taxid": 2817475,
                "species_taxid": 2817475,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.2479,
                "matched_fragments": 195,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Arthrobacter jiangjiafuii",
                "strain": "strain=zg-ZUI227",
                "accession": "GCA_018622995.1",
                "taxid": 2817475,
                "species_taxid": 2817475,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.2462,
                "matched_fragments": 195,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Agromyces marinus",
                "strain": "strain=DSM 26151",
                "accession": "GCA_021442325.1",
                "taxid": 1389020,
                "species_taxid": 1389020,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.9607,
                "matched_fragments": 130,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cellulomonas avistercoris",
                "strain": "strain=Sa3CUA2",
                "accession": "GCA_014836445.1",
                "taxid": 2762242,
                "species_taxid": 2762242,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.6266,
                "matched_fragments": 155,
                "total_fragments": 938,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCA_014652975.1",
                "gtdb_species": "s__Kocuria marina",
                "ani": 98.1391,
                "matched_fragments": 833,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.811,
                "mean_intra_species_ani": "98.16",
                "min_intra_species_ani": "96.52",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 16,
                "status": "inconclusive"
            },
            {
                "accession": "GCF_000786655.1",
                "gtdb_species": "s__Kocuria marina_A",
                "ani": 96.117,
                "matched_fragments": 851,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.811,
                "mean_intra_species_ani": "96.52",
                "min_intra_species_ani": "96.52",
                "mean_intra_species_af": "0.87",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 2,
                "status": "inconclusive"
            },
            {
                "accession": "GCF_000010285.1",
                "gtdb_species": "s__Kocuria rhizophila_A",
                "ani": 85.5671,
                "matched_fragments": 717,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.71",
                "min_intra_species_ani": "97.98",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 9,
                "status": "-"
            },
            {
                "accession": "GCF_007681555.1",
                "gtdb_species": "s__Kocuria salsicia",
                "ani": 85.2223,
                "matched_fragments": 716,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.09",
                "min_intra_species_ani": "95.42",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCF_003226895.2",
                "gtdb_species": "s__Kocuria tytonis",
                "ani": 84.9877,
                "matched_fragments": 715,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "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_003667225.1",
                "gtdb_species": "s__Kocuria rhizophila",
                "ani": 84.7656,
                "matched_fragments": 628,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.80",
                "min_intra_species_ani": "97.11",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 19,
                "status": "-"
            },
            {
                "accession": "GCF_006539885.1",
                "gtdb_species": "s__Kocuria varians",
                "ani": 84.5662,
                "matched_fragments": 695,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.47",
                "min_intra_species_ani": "99.47",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_003687455.1",
                "gtdb_species": "s__Kocuria tytonicola",
                "ani": 84.4625,
                "matched_fragments": 608,
                "total_fragments": 938,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.95",
                "min_intra_species_ani": "98.95",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.009,
        "cell_length": -0.009,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "optimum_tmp": 23.5,
        "optimum_ph": 7.416,
        "genome_size": 3066141.0,
        "gc_content": 68.82,
        "coding_genes": 2561.833,
        "rRNA16S_genes": 3.0,
        "tRNA_genes": 47.333,
        "gram_stain": 1.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": null,
        "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": 1.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Kocuria",
        "marina",
        "subsp.",
        "indica"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}