{
    "type": "genome",
    "identifier": "GCF_017979495.1",
    "organism": "Helicobacter cinaedi",
    "title": "Helicobacter cinaedi",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "King's College London",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_017979495.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN17297343",
        "wgs_master": "JAERIW000000000.1",
        "refseq_category": "na",
        "taxid": "213",
        "species_taxid": "213",
        "organism_name": "Helicobacter cinaedi",
        "infraspecific_name": "strain=DSM 5359",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2021/04/15",
        "asm_name": "ASM1797949v1",
        "asm_submitter": "King's College London",
        "gbrs_paired_asm": "GCA_017979495.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/979/495/GCF_017979495.1_ASM1797949v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "2219326",
        "genome_size_ungapped": "2219326",
        "gc_percent": "38.500000",
        "replicon_count": "0",
        "scaffold_count": "165",
        "contig_count": "165",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_017979495.1-RS_2024_05_11",
        "annotation_date": "2024-05-11",
        "total_gene_count": "2442",
        "protein_coding_gene_count": "2301",
        "non_coding_gene_count": "43",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2021-04-15",
    "dateModified": "2021-04-15",
    "datePublished": "2021-04-15",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Helicobacter cinaedi"
        ],
        "sample_taxid": [
            "213"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [
            "gastrointestinal"
        ],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA"
        ],
        "sample_host_location_id": [],
        "data_size": "0.619 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 100.0,
        "contamination": 4.17,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "2219326",
        "Number of Sequences": "165",
        "Longest Sequences (bp)": "294179",
        "N50 (bp)": "99069",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "38.4",
        "Number of CDSs": "2215",
        "Average Protein Length": "292.4",
        "Coding Ratio (%)": "87.6",
        "Number of rRNAs": "3",
        "Number of tRNAs": "38",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Helicobacter cinaedi",
                "strain": "strain=DSM 5359",
                "accession": "GCA_017979495.1",
                "taxid": 213,
                "species_taxid": 213,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 692,
                "total_fragments": 695,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Helicobacter cinaedi",
                "strain": "strain=ATCC BAA-847",
                "accession": "GCA_000349975.1",
                "taxid": 213,
                "species_taxid": 213,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9736,
                "matched_fragments": 693,
                "total_fragments": 695,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Helicobacter cinaedi",
                "strain": "strain=CCUG 18818",
                "accession": "GCA_000155475.1",
                "taxid": 213,
                "species_taxid": 213,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9666,
                "matched_fragments": 688,
                "total_fragments": 695,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Helicobacter cinaedi",
                "strain": "strain=CCUG 18818",
                "accession": "GCA_003215615.1",
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                "species_taxid": 213,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9372,
                "matched_fragments": 634,
                "total_fragments": 695,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Helicobacter labetoulli",
                "strain": "strain=48519",
                "accession": "GCA_003670275.1",
                "taxid": 2315333,
                "species_taxid": 2315333,
                "relation_to_type": "type",
                "validated": true,
                "ani": 90.4926,
                "matched_fragments": 556,
                "total_fragments": 695,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 4.17,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000155475.1",
                "gtdb_species": "s__Helicobacter_C cinaedi",
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                "matched_fragments": 688,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.33",
                "min_intra_species_ani": "98.84",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 38,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000765825.2",
                "gtdb_species": "s__Helicobacter_C magdeburgensis",
                "ani": 94.8315,
                "matched_fragments": 563,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.93",
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                "min_intra_species_af": "0.84",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_003670275.1",
                "gtdb_species": "s__Helicobacter_C labetoulli",
                "ani": 90.4636,
                "matched_fragments": 557,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "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_000762845.2",
                "gtdb_species": "s__Helicobacter_C japonicus",
                "ani": 78.6811,
                "matched_fragments": 285,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.98",
                "min_intra_species_ani": "99.98",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000007905.1",
                "gtdb_species": "s__Helicobacter_C hepaticus",
                "ani": 78.6369,
                "matched_fragments": 263,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.74",
                "min_intra_species_ani": "98.74",
                "mean_intra_species_af": "0.96",
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                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_910577135.1",
                "gtdb_species": "s__Helicobacter_C sp910577135",
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                "matched_fragments": 287,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "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,
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            },
            {
                "accession": "GCF_000763135.2",
                "gtdb_species": "s__Helicobacter_C jaachi",
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                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
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                "mean_intra_species_af": "N/A",
                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
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            },
            {
                "accession": "GCF_003364255.1",
                "gtdb_species": "s__Helicobacter_C marmotae",
                "ani": 78.1023,
                "matched_fragments": 246,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_C",
                "ani_circumscription_radius": 95.0,
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                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000765695.2",
                "gtdb_species": "s__Helicobacter_D sp000765695",
                "ani": 77.1565,
                "matched_fragments": 51,
                "total_fragments": 695,
                "gtdb_taxonomy": "d__Bacteria;p__Campylobacterota;c__Campylobacteria;o__Campylobacterales;f__Helicobacteraceae;g__Helicobacter_D",
                "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": -0.523,
        "cell_length": 0.176,
        "doubling_h": 0.5,
        "growth_tmp": 37.0,
        "optimum_tmp": 36.65,
        "optimum_ph": 7.3,
        "genome_size": 2180929.125,
        "gc_content": 38.407,
        "coding_genes": 2168.0,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 39.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
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        "range_salinity": 0.0,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
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        "mesophilic_range_tmp": 1.0,
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        "psychrophilic_range_tmp": 0.0,
        "bacillus_cell_shape": 0.0,
        "coccus_cell_shape": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 1.0
    },
    "_genome_taxon": [
        "Helicobacter",
        "cinaedi"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}