{
    "type": "genome",
    "identifier": "GCF_002899695.1",
    "organism": "Rubneribacter badeniensis",
    "title": "Rubneribacter badeniensis",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Max Rubner-Institut",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_002899695.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN08329306",
        "wgs_master": "PPEL00000000.1",
        "refseq_category": "reference genome",
        "taxid": "2070688",
        "species_taxid": "2070688",
        "organism_name": "Rubneribacter badeniensis",
        "infraspecific_name": "strain=ResAG-85",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/01/25",
        "asm_name": "ASM289969v1",
        "asm_submitter": "Max Rubner-Institut",
        "gbrs_paired_asm": "GCA_002899695.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/899/695/GCF_002899695.1_ASM289969v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3364395",
        "genome_size_ungapped": "3364395",
        "gc_percent": "65.000000",
        "replicon_count": "0",
        "scaffold_count": "201",
        "contig_count": "201",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_002899695.1-RS_2024_03_28",
        "annotation_date": "2024-03-28",
        "total_gene_count": "2705",
        "protein_coding_gene_count": "2622",
        "non_coding_gene_count": "54",
        "pubmed_id": "29537365"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-01-25",
    "dateModified": "2018-01-25",
    "datePublished": "2018-01-25",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Rubneribacter badeniensis"
        ],
        "sample_taxid": [
            "2070688"
        ],
        "sample_host_organism": [
            "Homo sapiens"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Germany: Karlsruhe"
        ],
        "sample_host_location_id": [],
        "data_size": "0.932 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)": "3364395",
        "Number of Sequences": "201",
        "Longest Sequences (bp)": "154742",
        "N50 (bp)": "28746",
        "Gap Ratio (%)": "0.000149",
        "GCcontent (%)": "65.1",
        "Number of CDSs": "2658",
        "Average Protein Length": "338.7",
        "Coding Ratio (%)": "80.3",
        "Number of rRNAs": "1",
        "Number of tRNAs": "52",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Eggerthella guodeyinii",
                "strain": "strain=HF-1101",
                "accession": "GCA_009834925.2",
                "taxid": 2690837,
                "species_taxid": 2690837,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.6503,
                "matched_fragments": 660,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eggerthella timonensis",
                "strain": "strain=Marseille-P3135",
                "accession": "GCA_900184265.1",
                "taxid": 1871008,
                "species_taxid": 1871008,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.4602,
                "matched_fragments": 625,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eggerthella sinensis",
                "strain": "strain=DSM 16107",
                "accession": "GCA_003725965.1",
                "taxid": 242230,
                "species_taxid": 242230,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.4126,
                "matched_fragments": 613,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Gordonibacter pamelaeae",
                "strain": "strain=7-10-1-bT",
                "accession": "GCA_000210055.1",
                "taxid": 471189,
                "species_taxid": 471189,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.1472,
                "matched_fragments": 509,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eggerthella lenta",
                "strain": "strain=DSM 2243",
                "accession": "GCA_000024265.1",
                "taxid": 84112,
                "species_taxid": 84112,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.0646,
                "matched_fragments": 599,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eggerthella lenta",
                "strain": "strain=DSM 2243",
                "accession": "GCA_003339975.1",
                "taxid": 84112,
                "species_taxid": 84112,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.0507,
                "matched_fragments": 584,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Gordonibacter urolithinfaciens",
                "strain": "strain=DSM 27213",
                "accession": "GCA_003788975.1",
                "taxid": 1335613,
                "species_taxid": 1335613,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.036,
                "matched_fragments": 520,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eggerthella lenta",
                "strain": "strain=ATCC 25559",
                "accession": "GCA_003340105.1",
                "taxid": 84112,
                "species_taxid": 84112,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.9778,
                "matched_fragments": 585,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Eggerthella lenta",
                "strain": "strain=UCSF2243",
                "accession": "GCA_003339945.1",
                "taxid": 84112,
                "species_taxid": 84112,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.9647,
                "matched_fragments": 580,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Gordonibacter urolithinfaciens",
                "strain": "strain=DSM 27213T",
                "accession": "GCA_900199375.1",
                "taxid": 1335613,
                "species_taxid": 1335613,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.9578,
                "matched_fragments": 522,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Senegalimassilia faecalis",
                "strain": "strain=KGMB04484",
                "accession": "GCA_004135645.1",
                "taxid": 2509433,
                "species_taxid": 2509433,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.6487,
                "matched_fragments": 311,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Motilibacter rhizosphaerae",
                "strain": "strain=DSM 45622",
                "accession": "GCA_004216915.1",
                "taxid": 598652,
                "species_taxid": 598652,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.2979,
                "matched_fragments": 72,
                "total_fragments": 1037,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_002899695.1",
                "gtdb_species": "s__Rubneribacter badeniensis",
                "ani": 100.0,
                "matched_fragments": 1023,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Rubneribacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.61",
                "min_intra_species_ani": "97.86",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 6,
                "status": "conclusive"
            },
            {
                "accession": "GCF_002159915.1",
                "gtdb_species": "s__Rubneribacter sp002159915",
                "ani": 88.5982,
                "matched_fragments": 761,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Rubneribacter",
                "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_019115845.1",
                "gtdb_species": "s__Rubneribacter avistercoris",
                "ani": 84.8886,
                "matched_fragments": 562,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Rubneribacter",
                "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_902386925.1",
                "gtdb_species": "s__Arabia massiliensis",
                "ani": 84.0306,
                "matched_fragments": 568,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Arabia",
                "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_009834925.2",
                "gtdb_species": "s__Eggerthella sp014287365",
                "ani": 83.6466,
                "matched_fragments": 661,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Eggerthella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.74",
                "min_intra_species_ani": "96.91",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_900184265.1",
                "gtdb_species": "s__Eggerthella timonensis",
                "ani": 83.4641,
                "matched_fragments": 625,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Eggerthella",
                "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_000210055.1",
                "gtdb_species": "s__Gordonibacter pamelaeae",
                "ani": 83.1639,
                "matched_fragments": 508,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Gordonibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.65",
                "min_intra_species_ani": "97.59",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 6,
                "status": "-"
            },
            {
                "accession": "GCF_000024265.1",
                "gtdb_species": "s__Eggerthella lenta",
                "ani": 83.0567,
                "matched_fragments": 599,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Eggerthella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.39",
                "min_intra_species_ani": "97.51",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 72,
                "status": "-"
            },
            {
                "accession": "GCF_900199375.1",
                "gtdb_species": "s__Gordonibacter urolithinfaciens",
                "ani": 82.9557,
                "matched_fragments": 522,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Gordonibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.27",
                "min_intra_species_ani": "97.45",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.82",
                "num_clustered_genomes": 14,
                "status": "-"
            },
            {
                "accession": "GCF_003339845.1",
                "gtdb_species": "s__Gordonibacter sp003339845",
                "ani": 82.6224,
                "matched_fragments": 524,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Gordonibacter",
                "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": "GCA_904420215.1",
                "gtdb_species": "s__CAJFUR01 sp904420215",
                "ani": 80.7754,
                "matched_fragments": 338,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__CAJFUR01",
                "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_019113915.1",
                "gtdb_species": "s__Gordonibacter avicola",
                "ani": 80.4315,
                "matched_fragments": 400,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Gordonibacter",
                "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_004135645.1",
                "gtdb_species": "s__Senegalimassilia faecalis",
                "ani": 79.6496,
                "matched_fragments": 310,
                "total_fragments": 1037,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Eggerthellaceae;g__Senegalimassilia",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.85",
                "min_intra_species_ani": "96.73",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 4,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": null,
        "optimum_tmp": null,
        "optimum_ph": null,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": null,
        "sporulation": null,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Rubneribacter",
        "badeniensis"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}