{
    "type": "genome",
    "identifier": "GCF_023035675.1",
    "organism": "Borrelia hermsii DAH",
    "title": "Borrelia hermsii DAH",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Baylor College of Medicine",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_023035675.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN18441553",
        "wgs_master": "na",
        "refseq_category": "na",
        "taxid": "314723",
        "species_taxid": "140",
        "organism_name": "Borrelia hermsii DAH",
        "infraspecific_name": "strain=DAH",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2022/04/18",
        "asm_name": "ASM2303567v1",
        "asm_submitter": "Baylor College of Medicine",
        "gbrs_paired_asm": "GCA_023035675.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/035/675/GCF_023035675.1_ASM2303567v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "1498568",
        "genome_size_ungapped": "1498568",
        "gc_percent": "30.500000",
        "replicon_count": "12",
        "scaffold_count": "12",
        "contig_count": "12",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_023035675.1-RS_2024_03_30",
        "annotation_date": "2024-03-30",
        "total_gene_count": "1514",
        "protein_coding_gene_count": "1401",
        "non_coding_gene_count": "38",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2022-04-18",
    "dateModified": "2022-04-18",
    "datePublished": "2022-04-18",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Borrelia hermsii DAH"
        ],
        "sample_taxid": [
            "314723"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [
            "human relapsing fever"
        ],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA: Washington"
        ],
        "sample_host_location_id": [],
        "data_size": "0.398 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)": "1498568",
        "Number of Sequences": "12",
        "Longest Sequences (bp)": "927976",
        "N50 (bp)": "927976",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "30.3",
        "Number of CDSs": "1492",
        "Average Protein Length": "288.3",
        "Coding Ratio (%)": "86.1",
        "Number of rRNAs": "3",
        "Number of tRNAs": "32",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Borrelia hermsii",
                "strain": "strain=DAH",
                "accession": "GCA_023035675.1",
                "taxid": 140,
                "species_taxid": 140,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 488,
                "total_fragments": 493,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Borrelia hermsii",
                "strain": "strain=DAH",
                "accession": "GCA_000012065.2",
                "taxid": 140,
                "species_taxid": 140,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 99.9606,
                "matched_fragments": 348,
                "total_fragments": 493,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Borrelia parkeri",
                "strain": "strain=SLO",
                "accession": "GCA_000568735.2",
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                "species_taxid": 141,
                "relation_to_type": "reftype",
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                "ani": 90.5724,
                "matched_fragments": 299,
                "total_fragments": 493,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Borrelia turicatae",
                "strain": "strain=91E135",
                "accession": "GCA_000012085.2",
                "taxid": 142,
                "species_taxid": 142,
                "relation_to_type": "reftype",
                "validated": true,
                "ani": 90.0188,
                "matched_fragments": 342,
                "total_fragments": 493,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Borrelia puertoricensis",
                "strain": "strain=SUM",
                "accession": "GCA_023035875.1",
                "taxid": 2756107,
                "species_taxid": 2756107,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.2609,
                "matched_fragments": 404,
                "total_fragments": 493,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Borrelia coriaceae",
                "strain": "strain=Co53",
                "accession": "GCA_023035295.1",
                "taxid": 144,
                "species_taxid": 144,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.6255,
                "matched_fragments": 383,
                "total_fragments": 493,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001660005.1",
                "gtdb_species": "s__Borrelia hermsii",
                "ani": 99.9447,
                "matched_fragments": 454,
                "total_fragments": 493,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borrelia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.15",
                "min_intra_species_ani": "95.65",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 7,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000012085.2",
                "gtdb_species": "s__Borrelia turicatae",
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                "matched_fragments": 345,
                "total_fragments": 493,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borrelia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.95",
                "min_intra_species_ani": "97.47",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_001936255.1",
                "gtdb_species": "s__Borrelia anserina",
                "ani": 87.5769,
                "matched_fragments": 320,
                "total_fragments": 493,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borrelia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.97",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000568755.1",
                "gtdb_species": "s__Borrelia coriaceae",
                "ani": 86.7183,
                "matched_fragments": 384,
                "total_fragments": 493,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borrelia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.88",
                "min_intra_species_ani": "99.88",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.96",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000445425.4",
                "gtdb_species": "s__Borrelia miyamotoi",
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                "matched_fragments": 294,
                "total_fragments": 493,
                "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Borreliales;f__Borreliaceae;g__Borrelia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.85",
                "min_intra_species_ani": "96.70",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "0.96",
                "num_clustered_genomes": 22,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.66,
        "cell_length": 1.079,
        "doubling_h": 0.707,
        "growth_tmp": 36.0,
        "optimum_tmp": null,
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        "genome_size": 1018350.75,
        "gc_content": 29.811,
        "coding_genes": 923.0,
        "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,
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        "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": [
        "Borrelia",
        "hermsii",
        "DAH"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}