{
    "type": "genome",
    "identifier": "GCF_000157995.1",
    "organism": "Holdemania filiformis DSM 12042",
    "title": "Holdemania filiformis DSM 12042",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Washington University Genome Sequencing Center",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000157995.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN00008830",
        "wgs_master": "ACCF00000000.1",
        "refseq_category": "na",
        "taxid": "545696",
        "species_taxid": "61171",
        "organism_name": "Holdemania filiformis DSM 12042",
        "infraspecific_name": "strain=DSM 12042",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2009/02/24",
        "asm_name": "ASM15799v1",
        "asm_submitter": "Washington University Genome Sequencing Center",
        "gbrs_paired_asm": "GCA_000157995.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/157/995/GCF_000157995.1_ASM15799v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3932923",
        "genome_size_ungapped": "3803745",
        "gc_percent": "50.000000",
        "replicon_count": "0",
        "scaffold_count": "35",
        "contig_count": "289",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000157995.1-RS_2024_04_22",
        "annotation_date": "2024-04-22",
        "total_gene_count": "3679",
        "protein_coding_gene_count": "3550",
        "non_coding_gene_count": "52",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2009-02-24",
    "dateModified": "2009-02-24",
    "datePublished": "2009-02-24",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Holdemania filiformis DSM 12042"
        ],
        "sample_taxid": [
            "545696"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "not determined"
        ],
        "sample_host_location_id": [],
        "data_size": "1.077 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 91.2,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "3932923",
        "Number of Sequences": "35",
        "Longest Sequences (bp)": "684668",
        "N50 (bp)": "433161",
        "Gap Ratio (%)": "3.284529",
        "GCcontent (%)": "50.2",
        "Number of CDSs": "3454",
        "Average Protein Length": "308.3",
        "Coding Ratio (%)": "81.2",
        "Number of rRNAs": "2",
        "Number of tRNAs": "46",
        "Number of CRISPRs": "7"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Holdemania filiformis",
                "strain": "strain=DSM 12042",
                "accession": "GCA_000157995.1",
                "taxid": 61171,
                "species_taxid": 61171,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9997,
                "matched_fragments": 1285,
                "total_fragments": 1297,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Holdemania massiliensis",
                "strain": "strain=AP2",
                "accession": "GCA_000327285.1",
                "taxid": 1468449,
                "species_taxid": 1468449,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.697,
                "matched_fragments": 811,
                "total_fragments": 1297,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 91.2,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000157995.1",
                "gtdb_species": "s__Holdemania filiformis",
                "ani": 99.9997,
                "matched_fragments": 1285,
                "total_fragments": 1297,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemania",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.46",
                "min_intra_species_ani": "96.45",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 4,
                "status": "conclusive"
            },
            {
                "accession": "GCF_900120005.1",
                "gtdb_species": "s__Holdemania sp900120005",
                "ani": 91.4634,
                "matched_fragments": 988,
                "total_fragments": 1297,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemania",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.60",
                "min_intra_species_ani": "98.10",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_000327285.1",
                "gtdb_species": "s__Holdemania massiliensis",
                "ani": 82.7061,
                "matched_fragments": 810,
                "total_fragments": 1297,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemania",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.23",
                "min_intra_species_ani": "97.80",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 8,
                "status": "-"
            },
            {
                "accession": "GCA_904395815.1",
                "gtdb_species": "s__Holdemania sp904395815",
                "ani": 78.4165,
                "matched_fragments": 286,
                "total_fragments": 1297,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Erysipelotrichaceae;g__Holdemania",
                "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": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": 37.0,
        "optimum_tmp": 37.0,
        "optimum_ph": null,
        "genome_size": 3803745.0,
        "gc_content": 50.2,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": 1.0,
        "sporulation": 0.0,
        "motility": null,
        "range_salinity": null,
        "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": [
        "Holdemania",
        "filiformis",
        "DSM",
        "12042"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}