{
    "type": "genome",
    "identifier": "GCF_016461795.1",
    "organism": "Rhodomicrobium udaipurense",
    "title": "Rhodomicrobium udaipurense",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Washington University in St. Louis",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_016461795.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN17079315",
        "wgs_master": "JAEMUK000000000.1",
        "refseq_category": "reference genome",
        "taxid": "1202716",
        "species_taxid": "1202716",
        "organism_name": "Rhodomicrobium udaipurense",
        "infraspecific_name": "strain=JA643",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2021/01/03",
        "asm_name": "ASM1646179v1",
        "asm_submitter": "Washington University in St. Louis",
        "gbrs_paired_asm": "GCA_016461795.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/461/795/GCF_016461795.1_ASM1646179v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3652920",
        "genome_size_ungapped": "3652920",
        "gc_percent": "62.500000",
        "replicon_count": "0",
        "scaffold_count": "94",
        "contig_count": "94",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_016461795.1-RS_2024_03_29",
        "annotation_date": "2024-03-29",
        "total_gene_count": "3392",
        "protein_coding_gene_count": "3288",
        "non_coding_gene_count": "53",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2021-01-03",
    "dateModified": "2021-01-03",
    "datePublished": "2021-01-03",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Rhodomicrobium udaipurense"
        ],
        "sample_taxid": [
            "1202716"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "India: Himachal Pradesh"
        ],
        "sample_host_location_id": [],
        "data_size": "1.022 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)": "3652920",
        "Number of Sequences": "94",
        "Longest Sequences (bp)": "334776",
        "N50 (bp)": "113688",
        "Gap Ratio (%)": "0.000575",
        "GCcontent (%)": "62.5",
        "Number of CDSs": "3290",
        "Average Protein Length": "312.7",
        "Coding Ratio (%)": "84.5",
        "Number of rRNAs": "3",
        "Number of tRNAs": "47",
        "Number of CRISPRs": "4"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Rhodomicrobium udaipurense",
                "strain": "strain=JA643",
                "accession": "GCA_016461795.1",
                "taxid": 1202716,
                "species_taxid": 1202716,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1180,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Rhodomicrobium udaipurense",
                "strain": "strain=JA643",
                "accession": "GCA_000636015.1",
                "taxid": 1202716,
                "species_taxid": 1202716,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.869,
                "matched_fragments": 1042,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Rhodomicrobium lacus",
                "strain": "strain=JA980",
                "accession": "GCA_003992725.1",
                "taxid": 2498452,
                "species_taxid": 2498452,
                "relation_to_type": "type",
                "validated": true,
                "ani": 87.7717,
                "matched_fragments": 985,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hyphomicrobium nitrativorans",
                "strain": "strain=NL23",
                "accession": "GCA_000503895.1",
                "taxid": 1427356,
                "species_taxid": 1427356,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1329,
                "matched_fragments": 126,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hyphomicrobium album",
                "strain": "strain=XQ2",
                "accession": "GCA_009708035.1",
                "taxid": 2665159,
                "species_taxid": 2665159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8946,
                "matched_fragments": 142,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Blastochloris tepida",
                "strain": "strain=GI",
                "accession": "GCA_003966715.1",
                "taxid": 2233851,
                "species_taxid": 2233851,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8784,
                "matched_fragments": 194,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Blastochloris sulfoviridis",
                "strain": "strain=DSM 729",
                "accession": "GCA_008630065.1",
                "taxid": 50712,
                "species_taxid": 50712,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7921,
                "matched_fragments": 195,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stappia albiluteola",
                "strain": "strain=F7233",
                "accession": "GCA_014050225.1",
                "taxid": 2758565,
                "species_taxid": 2758565,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7149,
                "matched_fragments": 123,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobrevis albus",
                "strain": "strain=L22",
                "accession": "GCA_015904235.1",
                "taxid": 2793297,
                "species_taxid": 2793297,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.6501,
                "matched_fragments": 194,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Chelatococcus caeni",
                "strain": "strain=DSM 103737",
                "accession": "GCA_014196925.1",
                "taxid": 1348468,
                "species_taxid": 1348468,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.5953,
                "matched_fragments": 196,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Dichotomicrobium thermohalophilum",
                "strain": "strain=DSM 5002",
                "accession": "GCA_003550175.1",
                "taxid": 933063,
                "species_taxid": 933063,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.5548,
                "matched_fragments": 133,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium mesophilicum",
                "strain": "strain=NBRC 15688",
                "accession": "GCA_022179445.1",
                "taxid": 39956,
                "species_taxid": 39956,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.5123,
                "matched_fragments": 141,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kaistia hirudinis",
                "strain": "strain=DSM 25966",
                "accession": "GCA_014196455.1",
                "taxid": 1293440,
                "species_taxid": 1293440,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4555,
                "matched_fragments": 172,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bradyrhizobium oropedii",
                "strain": "strain=Pear76",
                "accession": "GCA_020889685.1",
                "taxid": 1571201,
                "species_taxid": 1571201,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.445,
                "matched_fragments": 160,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Salinarimonas ramus",
                "strain": "strain=CGMCC 1.9161",
                "accession": "GCA_014645695.1",
                "taxid": 690164,
                "species_taxid": 690164,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4199,
                "matched_fragments": 188,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Bradyrhizobium cajani",
                "strain": "strain=1010",
                "accession": "GCA_009759665.1",
                "taxid": 1928661,
                "species_taxid": 1928661,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3416,
                "matched_fragments": 181,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium gregans",
                "strain": "strain=NBRC 103626",
                "accession": "GCA_022179245.1",
                "taxid": 374424,
                "species_taxid": 374424,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3173,
                "matched_fragments": 156,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Skermanella aerolata",
                "strain": "strain=5416T-32",
                "accession": "GCA_000936425.1",
                "taxid": 393310,
                "species_taxid": 393310,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.8616,
                "matched_fragments": 118,
                "total_fragments": 1184,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000636015.1",
                "gtdb_species": "s__Rhodomicrobium udaipurense",
                "ani": 99.869,
                "matched_fragments": 1042,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__Rhodomicrobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.25",
                "min_intra_species_ani": "96.51",
                "mean_intra_species_af": "0.94",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000166055.1",
                "gtdb_species": "s__Rhodomicrobium vannielii",
                "ani": 94.8737,
                "matched_fragments": 1047,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__Rhodomicrobium",
                "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_018619475.1",
                "gtdb_species": "s__Rhodomicrobium sp018619475",
                "ani": 88.6568,
                "matched_fragments": 891,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__Rhodomicrobium",
                "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_003992725.1",
                "gtdb_species": "s__Rhodomicrobium lacus",
                "ani": 87.7588,
                "matched_fragments": 987,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__Rhodomicrobium",
                "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_003153975.1",
                "gtdb_species": "s__Rhodomicrobium sp003153975",
                "ani": 77.7409,
                "matched_fragments": 313,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__Rhodomicrobium",
                "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_002198715.1",
                "gtdb_species": "s__R-RK-3 sp002198715",
                "ani": 77.2505,
                "matched_fragments": 240,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__R-RK-3",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.98",
                "min_intra_species_ani": "99.98",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_003550175.1",
                "gtdb_species": "s__Dichotomicrobium thermohalophilum",
                "ani": 76.5548,
                "matched_fragments": 133,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhodomicrobiaceae;g__Dichotomicrobium",
                "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_000936425.1",
                "gtdb_species": "s__Skermanella aerolata",
                "ani": 75.8616,
                "matched_fragments": 118,
                "total_fragments": 1184,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Azospirillales;f__Azospirillaceae;g__Skermanella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "0.98",
                "min_intra_species_af": "0.98",
                "num_clustered_genomes": 2,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": 0.113,
        "cell_length": 0.511,
        "doubling_h": null,
        "growth_tmp": 26.0,
        "optimum_tmp": 29.0,
        "optimum_ph": 7.0,
        "genome_size": 3631113.0,
        "gc_content": 62.5,
        "coding_genes": 3572.333,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 49.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": 0.0,
        "facultative_respiration": 1.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": 0.0,
        "thermophilic_range_tmp": 0.0,
        "psychrophilic_range_tmp": 1.0,
        "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": [
        "Rhodomicrobium",
        "udaipurense"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}