{
    "type": "genome",
    "identifier": "GCF_002083055.2",
    "organism": "Borreliella burgdorferi",
    "title": "Borreliella burgdorferi",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "University of Maryland School of Medicine Institute for Genome Sciences (IGS) - sequencing center",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002083055.2",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN04875533",
        "wgs_master": "NBTP00000000.2",
        "refseq_category": "na",
        "taxid": "139",
        "species_taxid": "139",
        "organism_name": "Borreliella burgdorferi",
        "infraspecific_name": "strain=FDAARGOS_196",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/01/19",
        "asm_name": "ASM208305v2",
        "asm_submitter": "University of Maryland School of Medicine Institute for Genome Sciences (IGS) - sequencing center",
        "gbrs_paired_asm": "GCA_002083055.2",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/083/055/GCF_002083055.2_ASM208305v2",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "1340423",
        "genome_size_ungapped": "1340423",
        "gc_percent": "0",
        "replicon_count": "0",
        "scaffold_count": "12",
        "contig_count": "12",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002083055.2-RS_2024_03_16",
        "annotation_date": "2024-03-16",
        "total_gene_count": "1389",
        "protein_coding_gene_count": "1267",
        "non_coding_gene_count": "43",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-01-19",
    "dateModified": "2018-01-19",
    "datePublished": "2018-01-19",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Borreliella burgdorferi"
        ],
        "sample_taxid": [
            "139"
        ],
        "sample_host_organism": [
            "Environment"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [
            "Lyme disease in humans",
            "Not Applicable"
        ],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA:NY"
        ],
        "sample_host_location_id": [],
        "data_size": "0.354 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)": "1340423",
        "Number of Sequences": "12",
        "Longest Sequences (bp)": "911226",
        "N50 (bp)": "911226",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "28.5",
        "Number of CDSs": "1354",
        "Average Protein Length": "286.9",
        "Coding Ratio (%)": "86.9",
        "Number of rRNAs": "5",
        "Number of tRNAs": "36",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Borreliella burgdorferi",
                "strain": "strain=FDAARGOS_196",
                "accession": "GCA_002083055.2",
                "taxid": 139,
                "species_taxid": 139,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 439,
                "total_fragments": 441,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Borreliella burgdorferi",
                "strain": "strain=B31",
                "accession": "GCA_000008685.2",
                "taxid": 139,
                "species_taxid": 139,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9312,
                "matched_fragments": 429,
                "total_fragments": 441,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Borreliella burgdorferi",
                "strain": "strain=B31_NRZ",
                "accession": "GCA_002151505.1",
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                "species_taxid": 139,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.906,
                "matched_fragments": 413,
                "total_fragments": 441,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Borreliella finlandensis",
                "strain": "strain=SV1",
                "accession": "GCA_000181875.2",
                "taxid": 498741,
                "species_taxid": 498741,
                "relation_to_type": "type",
                "validated": true,
                "ani": 96.7088,
                "matched_fragments": 365,
                "total_fragments": 441,
                "ani_threshold": 95,
                "status": "inconclusive"
            },
            {
                "organism_name": "Borreliella lanei",
                "strain": "strain=DSM 17992",
                "accession": "GCA_014205895.1",
                "taxid": 373540,
                "species_taxid": 373540,
                "relation_to_type": "type",
                "validated": true,
                "ani": 94.5676,
                "matched_fragments": 345,
                "total_fragments": 441,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Borreliella bissettiae",
                "strain": "strain=DN127",
                "accession": "GCA_000222305.1",
                "taxid": 64897,
                "species_taxid": 64897,
                "relation_to_type": "type",
                "validated": true,
                "ani": 93.7276,
                "matched_fragments": 388,
                "total_fragments": 441,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000008685.2",
                "gtdb_species": "s__Borreliella burgdorferi",
                "ani": 99.9344,
                "matched_fragments": 428,
                "total_fragments": 441,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borreliella",
                "ani_circumscription_radius": 96.6606,
                "mean_intra_species_ani": "99.04",
                "min_intra_species_ani": "98.60",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 102,
                "status": "inconclusive"
            },
            {
                "accession": "GCF_000181875.2",
                "gtdb_species": "s__Borreliella finlandensis",
                "ani": 96.6919,
                "matched_fragments": 365,
                "total_fragments": 441,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borreliella",
                "ani_circumscription_radius": 96.6606,
                "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": "inconclusive"
            },
            {
                "accession": "GCF_014205895.1",
                "gtdb_species": "s__Borreliella lanei",
                "ani": 94.5244,
                "matched_fragments": 346,
                "total_fragments": 441,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borreliella",
                "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_001945665.1",
                "gtdb_species": "s__Borreliella mayonii",
                "ani": 93.7809,
                "matched_fragments": 362,
                "total_fragments": 441,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borreliella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000222305.1",
                "gtdb_species": "s__Borreliella bissettiae",
                "ani": 93.7315,
                "matched_fragments": 387,
                "total_fragments": 441,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borreliella",
                "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_014205885.1",
                "gtdb_species": "s__Borreliella californiensis",
                "ani": 93.3757,
                "matched_fragments": 371,
                "total_fragments": 441,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borreliella",
                "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": -0.699,
        "cell_length": 0.602,
        "doubling_h": 0.602,
        "growth_tmp": 34.0,
        "optimum_tmp": 33.12,
        "optimum_ph": null,
        "genome_size": 1184456.845,
        "gc_content": 27.638,
        "coding_genes": 1244.467,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 32.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": 0.0,
        "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": 0.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 1.0
    },
    "_genome_taxon": [
        "Borreliella",
        "burgdorferi"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}