{
    "type": "genome",
    "identifier": "GCF_905397435.1",
    "organism": "Cupriavidus numazuensis",
    "title": "Cupriavidus numazuensis",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "LM-UGent",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_905397435.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMEA8420085",
        "wgs_master": "CAJPVI000000000.1",
        "refseq_category": "reference genome",
        "taxid": "221992",
        "species_taxid": "221992",
        "organism_name": "Cupriavidus numazuensis",
        "infraspecific_name": "strain=LMG 26411",
        "isolate": "LMG 26411",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2021/04/15",
        "asm_name": "LMG 26411",
        "asm_submitter": "LM-UGent",
        "gbrs_paired_asm": "GCA_905397435.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/905/397/435/GCF_905397435.1_LMG_26411",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "9041797",
        "genome_size_ungapped": "9041797",
        "gc_percent": "64.500000",
        "replicon_count": "0",
        "scaffold_count": "182",
        "contig_count": "182",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_905397435.1-RS_2024_04_26",
        "annotation_date": "2024-04-26",
        "total_gene_count": "8264",
        "protein_coding_gene_count": "8023",
        "non_coding_gene_count": "75",
        "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": [
            "Cupriavidus numazuensis"
        ],
        "sample_taxid": [
            "221992"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Japan"
        ],
        "sample_host_location_id": [],
        "data_size": "2.518 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)": "9041797",
        "Number of Sequences": "182",
        "Longest Sequences (bp)": "408516",
        "N50 (bp)": "123620",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "64.3",
        "Number of CDSs": "8132",
        "Average Protein Length": "319.3",
        "Coding Ratio (%)": "86.1",
        "Number of rRNAs": "0",
        "Number of tRNAs": "71",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Cupriavidus numazuensis",
                "strain": "strain=LMG 26411",
                "accession": "GCA_905397435.1",
                "taxid": 221992,
                "species_taxid": 221992,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2926,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Cupriavidus neocaledonicus",
                "strain": "strain=STM6070",
                "accession": "GCA_000372525.1",
                "taxid": 1040979,
                "species_taxid": 1040979,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.8122,
                "matched_fragments": 1394,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cupriavidus nantongensis",
                "strain": "strain=X1",
                "accession": "GCA_001598055.1",
                "taxid": 1796606,
                "species_taxid": 1796606,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.7136,
                "matched_fragments": 1348,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cupriavidus taiwanensis",
                "strain": "strain=LMG 19424",
                "accession": "GCA_000069785.1",
                "taxid": 164546,
                "species_taxid": 164546,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 84.6686,
                "matched_fragments": 1365,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cupriavidus oxalaticus",
                "strain": "strain=Ox1",
                "accession": "GCA_016894385.1",
                "taxid": 96344,
                "species_taxid": 96344,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.6026,
                "matched_fragments": 1503,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cupriavidus alkaliphilus",
                "strain": "strain=ASC-732",
                "accession": "GCA_900094595.1",
                "taxid": 942866,
                "species_taxid": 942866,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.5946,
                "matched_fragments": 1396,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cupriavidus oxalaticus",
                "strain": "strain=NBRC 13593",
                "accession": "GCA_001592245.1",
                "taxid": 96344,
                "species_taxid": 96344,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.5909,
                "matched_fragments": 1476,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Cupriavidus lacunae",
                "strain": "strain=S23",
                "accession": "GCA_003353055.1",
                "taxid": 2666307,
                "species_taxid": 2666307,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.4681,
                "matched_fragments": 1541,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Massilia agilis",
                "strain": "strain=JCM 31605",
                "accession": "GCA_024756255.1",
                "taxid": 1811226,
                "species_taxid": 1811226,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.3429,
                "matched_fragments": 484,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Burkholderia perseverans",
                "strain": "strain=INN12",
                "accession": "GCA_022870505.1",
                "taxid": 2615214,
                "species_taxid": 2615214,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.3248,
                "matched_fragments": 706,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paraburkholderia podalyriae",
                "strain": "strain=WC7.3b",
                "accession": "GCA_014397785.1",
                "taxid": 1938811,
                "species_taxid": 1938811,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.9677,
                "matched_fragments": 578,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Achromobacter xylosoxidans",
                "strain": "strain=PartM-Axylosoxidans-RM8376",
                "accession": "GCA_022870085.1",
                "taxid": 85698,
                "species_taxid": 85698,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.756,
                "matched_fragments": 573,
                "total_fragments": 2935,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_905397435.1",
                "gtdb_species": "s__Cupriavidus numazuensis",
                "ani": 100.0,
                "matched_fragments": 2926,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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": "conclusive"
            },
            {
                "accession": "GCF_000203875.1",
                "gtdb_species": "s__Cupriavidus pinatubonensis",
                "ani": 93.3498,
                "matched_fragments": 1973,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.67",
                "min_intra_species_ani": "99.34",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_001725945.1",
                "gtdb_species": "s__Cupriavidus sp001725945",
                "ani": 88.5105,
                "matched_fragments": 1657,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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_905397275.1",
                "gtdb_species": "s__Cupriavidus yeoncheonensis",
                "ani": 88.1741,
                "matched_fragments": 1705,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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_000372525.1",
                "gtdb_species": "s__Cupriavidus neocaledonicus",
                "ani": 84.8561,
                "matched_fragments": 1387,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.97",
                "min_intra_species_ani": "99.97",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.98",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_017814975.1",
                "gtdb_species": "s__Cupriavidus sp017814975",
                "ani": 84.6448,
                "matched_fragments": 1614,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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_016894385.1",
                "gtdb_species": "s__Cupriavidus oxalaticus",
                "ani": 84.6348,
                "matched_fragments": 1497,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.73",
                "min_intra_species_ani": "98.93",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 5,
                "status": "-"
            },
            {
                "accession": "GCF_900250075.1",
                "gtdb_species": "s__Cupriavidus taiwanensis_C",
                "ani": 84.5972,
                "matched_fragments": 1422,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.42",
                "min_intra_species_ani": "95.79",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 6,
                "status": "-"
            },
            {
                "accession": "GCF_900094595.1",
                "gtdb_species": "s__Cupriavidus alkaliphilus",
                "ani": 84.5748,
                "matched_fragments": 1399,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.96",
                "min_intra_species_ani": "96.04",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 16,
                "status": "-"
            },
            {
                "accession": "GCF_000426345.1",
                "gtdb_species": "s__Cupriavidus sp000426345",
                "ani": 84.4379,
                "matched_fragments": 1496,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.93",
                "min_intra_species_ani": "98.88",
                "mean_intra_species_af": "0.87",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_000219215.1",
                "gtdb_species": "s__Cupriavidus necator",
                "ani": 84.4202,
                "matched_fragments": 1574,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.10",
                "min_intra_species_ani": "95.22",
                "mean_intra_species_af": "0.79",
                "min_intra_species_af": "0.76",
                "num_clustered_genomes": 13,
                "status": "-"
            },
            {
                "accession": "GCA_000471925.1",
                "gtdb_species": "s__Cupriavidus pickettii_A",
                "ani": 84.3895,
                "matched_fragments": 1567,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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_013141915.1",
                "gtdb_species": "s__Cupriavidus necator_B",
                "ani": 84.3784,
                "matched_fragments": 1409,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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_000812465.1",
                "gtdb_species": "s__Cupriavidus sp000812465",
                "ani": 84.3677,
                "matched_fragments": 1447,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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_000744095.1",
                "gtdb_species": "s__Cupriavidus necator_A",
                "ani": 84.291,
                "matched_fragments": 1605,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus",
                "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": "GCA_004570315.1",
                "gtdb_species": "s__Noviherbaspirillum sp004570315",
                "ani": 77.6905,
                "matched_fragments": 406,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Noviherbaspirillum",
                "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_016106025.1",
                "gtdb_species": "s__Methylococcus sp016106025",
                "ani": 75.7394,
                "matched_fragments": 80,
                "total_fragments": 2935,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylococcaceae;g__Methylococcus",
                "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": -0.237,
        "cell_length": 0.035,
        "doubling_h": null,
        "growth_tmp": 25.0,
        "optimum_tmp": 29.455,
        "optimum_ph": 7.516,
        "genome_size": 6862112.82,
        "gc_content": 65.149,
        "coding_genes": 6270.277,
        "rRNA16S_genes": 5.2,
        "tRNA_genes": 64.4,
        "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": 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": [
        "Cupriavidus",
        "numazuensis"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}