{
    "type": "genome",
    "identifier": "GCF_000425865.1",
    "organism": "Lacticigenium naphthae DSM 19658",
    "title": "Lacticigenium naphthae DSM 19658",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000425865.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02440849",
        "wgs_master": "AUEG00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1122143",
        "species_taxid": "515351",
        "organism_name": "Lacticigenium naphthae DSM 19658",
        "infraspecific_name": "strain=DSM 19658",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/07/11",
        "asm_name": "ASM42586v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_000425865.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/425/865/GCF_000425865.1_ASM42586v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2134509",
        "genome_size_ungapped": "2130957",
        "gc_percent": "37.500000",
        "replicon_count": "0",
        "scaffold_count": "32",
        "contig_count": "36",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000425865.1-RS_2024_05_02",
        "annotation_date": "2024-05-02",
        "total_gene_count": "1998",
        "protein_coding_gene_count": "1943",
        "non_coding_gene_count": "32",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-07-11",
    "dateModified": "2013-07-11",
    "datePublished": "2013-07-11",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Lacticigenium naphthae DSM 19658"
        ],
        "sample_taxid": [
            "1122143"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Japan"
        ],
        "sample_host_location_id": [],
        "data_size": "0.605 MB",
        "sample_ph_range": {
            "min": 6585.0,
            "max": 6585.0
        },
        "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)": "2134509",
        "Number of Sequences": "32",
        "Longest Sequences (bp)": "581997",
        "N50 (bp)": "168149",
        "Gap Ratio (%)": "0.166408",
        "GCcontent (%)": "37.6",
        "Number of CDSs": "1959",
        "Average Protein Length": "307.8",
        "Coding Ratio (%)": "84.7",
        "Number of rRNAs": "3",
        "Number of tRNAs": "20",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Lacticigenium naphthae",
                "strain": "strain=DSM 19658",
                "accession": "GCA_000425865.1",
                "taxid": 515351,
                "species_taxid": 515351,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 691,
                "total_fragments": 693,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Carnobacterium viridans",
                "strain": "strain=MPL-11",
                "accession": "GCA_900102725.1",
                "taxid": 174587,
                "species_taxid": 174587,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3,
                "matched_fragments": 58,
                "total_fragments": 693,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000425865.1",
                "gtdb_species": "s__Lacticigenium naphthae",
                "ani": 100.0,
                "matched_fragments": 691,
                "total_fragments": 693,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Carnobacteriaceae;g__Lacticigenium",
                "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_900102725.1",
                "gtdb_species": "s__Carnobacterium_A viridans",
                "ani": 76.3,
                "matched_fragments": 58,
                "total_fragments": 693,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Carnobacteriaceae;g__Carnobacterium_A",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.44",
                "min_intra_species_ani": "98.44",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_016892605.1",
                "gtdb_species": "s__Desemzia sp016892605",
                "ani": 76.2029,
                "matched_fragments": 60,
                "total_fragments": 693,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Carnobacteriaceae;g__Desemzia",
                "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": -0.205,
        "cell_length": 0.295,
        "doubling_h": null,
        "growth_tmp": 30.0,
        "optimum_tmp": 30.0,
        "optimum_ph": 7.0,
        "genome_size": 2133716.0,
        "gc_content": 37.6,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "facultative_respiration": 1.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Lacticigenium",
        "naphthae",
        "DSM",
        "19658"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}