{
    "type": "genome",
    "identifier": "GCF_002214805.1",
    "organism": "Brachyspira hampsonii",
    "title": "Brachyspira hampsonii",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Minnesota",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002214805.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN06245869",
        "wgs_master": "na",
        "refseq_category": "na",
        "taxid": "1287055",
        "species_taxid": "1287055",
        "organism_name": "Brachyspira hampsonii",
        "infraspecific_name": "strain=NSH-16",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2017/07/05",
        "asm_name": "ASM221480v1",
        "asm_submitter": "University of Minnesota",
        "gbrs_paired_asm": "GCA_002214805.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/214/805/GCF_002214805.1_ASM221480v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3189639",
        "genome_size_ungapped": "3189639",
        "gc_percent": "27.500000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002214805.1-RS_2024_03_29",
        "annotation_date": "2024-03-29",
        "total_gene_count": "2881",
        "protein_coding_gene_count": "2811",
        "non_coding_gene_count": "40",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2017-07-05",
    "dateModified": "2017-07-05",
    "datePublished": "2017-07-05",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Brachyspira hampsonii"
        ],
        "sample_taxid": [
            "1287055"
        ],
        "sample_host_organism": [
            "pig"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [
            "swine dysentery"
        ],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA"
        ],
        "sample_host_location_id": [],
        "data_size": "0.853 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)": "3189639",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "3189639",
        "N50 (bp)": "3189639",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "27.4",
        "Number of CDSs": "2882",
        "Average Protein Length": "321.7",
        "Coding Ratio (%)": "87.2",
        "Number of rRNAs": "3",
        "Number of tRNAs": "34",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Brachyspira hampsonii",
                "strain": "strain=NSH-16",
                "accession": "GCA_002214805.1",
                "taxid": 1287055,
                "species_taxid": 1287055,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1061,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Brachyspira hampsonii",
                "strain": "strain=NSH-16",
                "accession": "GCA_001746225.1",
                "taxid": 1287055,
                "species_taxid": 1287055,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.955,
                "matched_fragments": 1011,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Brachyspira intermedia",
                "strain": "strain=PWS/A",
                "accession": "GCA_000223215.1",
                "taxid": 84377,
                "species_taxid": 84377,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.6924,
                "matched_fragments": 883,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Brachyspira hyodysenteriae",
                "strain": "strain=B-78",
                "accession": "GCA_001676785.2",
                "taxid": 159,
                "species_taxid": 159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.5998,
                "matched_fragments": 864,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Brachyspira hyodysenteriae",
                "strain": "strain=B78",
                "accession": "GCA_000383255.1",
                "taxid": 159,
                "species_taxid": 159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.5861,
                "matched_fragments": 861,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Brachyspira hyodysenteriae",
                "strain": "strain=B78",
                "accession": "GCA_001013005.1",
                "taxid": 159,
                "species_taxid": 159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.5584,
                "matched_fragments": 861,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Brachyspira suanatina",
                "strain": "strain=AN4859/03",
                "accession": "GCA_001049755.1",
                "taxid": 381802,
                "species_taxid": 381802,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.459,
                "matched_fragments": 891,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Brachyspira murdochii",
                "strain": "strain=DSM 12563",
                "accession": "GCA_000092845.1",
                "taxid": 84378,
                "species_taxid": 84378,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.0474,
                "matched_fragments": 820,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Brachyspira innocens",
                "strain": "strain=B256",
                "accession": "GCA_000384655.1",
                "taxid": 13264,
                "species_taxid": 13264,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.8549,
                "matched_fragments": 768,
                "total_fragments": 1063,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_002214805.1",
                "gtdb_species": "s__Brachyspira hampsonii",
                "ani": 100.0,
                "matched_fragments": 1063,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.94",
                "min_intra_species_ani": "99.90",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_001746205.1",
                "gtdb_species": "s__Brachyspira hampsonii_B",
                "ani": 94.0352,
                "matched_fragments": 914,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "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_000316195.1",
                "gtdb_species": "s__Brachyspira hampsonii_C",
                "ani": 93.3913,
                "matched_fragments": 916,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.70",
                "min_intra_species_ani": "97.44",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_000223215.1",
                "gtdb_species": "s__Brachyspira intermedia",
                "ani": 88.6782,
                "matched_fragments": 884,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "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_001676785.2",
                "gtdb_species": "s__Brachyspira hyodysenteriae",
                "ani": 88.5766,
                "matched_fragments": 865,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.16",
                "min_intra_species_ani": "98.93",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.95",
                "num_clustered_genomes": 58,
                "status": "-"
            },
            {
                "accession": "GCF_001049755.1",
                "gtdb_species": "s__Brachyspira suanatina",
                "ani": 88.483,
                "matched_fragments": 888,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "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_000092845.1",
                "gtdb_species": "s__Brachyspira murdochii",
                "ani": 85.9871,
                "matched_fragments": 821,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.81",
                "min_intra_species_ani": "96.97",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.93",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_000384655.1",
                "gtdb_species": "s__Brachyspira innocens",
                "ani": 85.7735,
                "matched_fragments": 775,
                "total_fragments": 1063,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Brachyspirae;o__Brachyspirales;f__Brachyspiraceae;g__Brachyspira",
                "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": -0.456,
        "cell_length": 0.738,
        "doubling_h": 0.477,
        "growth_tmp": 37.0,
        "optimum_tmp": 37.0,
        "optimum_ph": 7.0,
        "genome_size": 2999789.75,
        "gc_content": 27.665,
        "coding_genes": 2613.666,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 33.25,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "facultative_respiration": 0.25,
        "anaerobic_respiration": 0.75,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 1.0,
        "thermophilic_range_tmp": 0.0,
        "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": [
        "Brachyspira",
        "hampsonii"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}