{
    "type": "genome",
    "identifier": "GCF_900167105.1",
    "organism": "Porphyromonas circumdentaria",
    "title": "Porphyromonas circumdentaria",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE - JOINT GENOME INSTITUTE",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_900167105.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02745171",
        "wgs_master": "FUXE00000000.1",
        "refseq_category": "reference genome",
        "taxid": "29524",
        "species_taxid": "29524",
        "organism_name": "Porphyromonas circumdentaria",
        "infraspecific_name": "strain=ATCC 51356",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/03/04",
        "asm_name": "IMG-taxon 2582581320 annotated assembly",
        "asm_submitter": "DOE - JOINT GENOME INSTITUTE",
        "gbrs_paired_asm": "GCA_900167105.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/167/105/GCF_900167105.1_IMG-taxon_2582581320_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": "2033794",
        "genome_size_ungapped": "2030544",
        "gc_percent": "43.000000",
        "replicon_count": "0",
        "scaffold_count": "35",
        "contig_count": "35",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_900167105.1-RS_2024_10_23",
        "annotation_date": "2024-10-23",
        "total_gene_count": "1733",
        "protein_coding_gene_count": "1648",
        "non_coding_gene_count": "52",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-03-04",
    "dateModified": "2017-03-04",
    "datePublished": "2017-03-04",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Porphyromonas circumdentaria"
        ],
        "sample_taxid": [
            "29524"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Australia"
        ],
        "sample_host_location_id": [],
        "data_size": "0.580 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)": "2033794",
        "Number of Sequences": "35",
        "Longest Sequences (bp)": "180202",
        "N50 (bp)": "115013",
        "Gap Ratio (%)": "0.159800",
        "GCcontent (%)": "43.0",
        "Number of CDSs": "1582",
        "Average Protein Length": "359.5",
        "Coding Ratio (%)": "83.9",
        "Number of rRNAs": "3",
        "Number of tRNAs": "44",
        "Number of CRISPRs": "2"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Porphyromonas circumdentaria",
                "strain": "strain=ATCC 51356",
                "accession": "GCA_900167105.1",
                "taxid": 29524,
                "species_taxid": 29524,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 658,
                "total_fragments": 660,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Porphyromonas circumdentaria",
                "strain": "strain=DSM 103022",
                "accession": "GCA_014206885.1",
                "taxid": 29524,
                "species_taxid": 29524,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9826,
                "matched_fragments": 649,
                "total_fragments": 660,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Porphyromonas gingivicanis",
                "strain": "strain=JCM 15907",
                "accession": "GCA_000614585.1",
                "taxid": 266762,
                "species_taxid": 266762,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.4989,
                "matched_fragments": 357,
                "total_fragments": 660,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_900167105.1",
                "gtdb_species": "s__Porphyromonas circumdentaria",
                "ani": 100.0,
                "matched_fragments": 658,
                "total_fragments": 660,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__Porphyromonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.98",
                "num_clustered_genomes": 2,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000614585.1",
                "gtdb_species": "s__Porphyromonas gingivicanis",
                "ani": 81.4989,
                "matched_fragments": 357,
                "total_fragments": 660,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Porphyromonadaceae;g__Porphyromonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.86",
                "min_intra_species_ani": "98.86",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.523,
        "cell_length": -0.097,
        "doubling_h": 0.809,
        "growth_tmp": 37.0,
        "optimum_tmp": 36.694,
        "optimum_ph": 7.825,
        "genome_size": 2033794.0,
        "gc_content": 47.952,
        "coding_genes": 1811.644,
        "rRNA16S_genes": 3.0,
        "tRNA_genes": 52.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": 0.0,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 1.0,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Porphyromonas",
        "circumdentaria"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}