{
    "type": "genome",
    "identifier": "GCF_900116175.1",
    "organism": "Hyphomicrobium facile",
    "title": "Hyphomicrobium facile",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE - JOINT GENOME INSTITUTE",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_900116175.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN04488557",
        "wgs_master": "FPCH00000000.1",
        "refseq_category": "reference genome",
        "taxid": "51670",
        "species_taxid": "51670",
        "organism_name": "Hyphomicrobium facile",
        "infraspecific_name": "strain=DSM 1565",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2016/11/02",
        "asm_name": "IMG-taxon 2636416034 annotated assembly",
        "asm_submitter": "DOE - JOINT GENOME INSTITUTE",
        "gbrs_paired_asm": "GCA_900116175.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/116/175/GCF_900116175.1_IMG-taxon_2636416034_annotated_assembly",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4425354",
        "genome_size_ungapped": "4425354",
        "gc_percent": "60.000000",
        "replicon_count": "0",
        "scaffold_count": "5",
        "contig_count": "5",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_900116175.1-RS_2024_04_24",
        "annotation_date": "2024-04-24",
        "total_gene_count": "4108",
        "protein_coding_gene_count": "4018",
        "non_coding_gene_count": "61",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2016-11-02",
    "dateModified": "2016-11-02",
    "datePublished": "2016-11-02",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Hyphomicrobium facile"
        ],
        "sample_taxid": [
            "51670"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.244 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)": "4425354",
        "Number of Sequences": "5",
        "Longest Sequences (bp)": "1462005",
        "N50 (bp)": "1323007",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "60.0",
        "Number of CDSs": "4129",
        "Average Protein Length": "306.9",
        "Coding Ratio (%)": "85.9",
        "Number of rRNAs": "6",
        "Number of tRNAs": "54",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Hyphomicrobium facile",
                "strain": "strain=DSM 1565",
                "accession": "GCA_900116175.1",
                "taxid": 51670,
                "species_taxid": 51670,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1473,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Hyphomicrobium denitrificans",
                "strain": "strain=ATCC 51888",
                "accession": "GCA_000143145.1",
                "taxid": 53399,
                "species_taxid": 53399,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.697,
                "matched_fragments": 527,
                "total_fragments": 1473,
                "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": 77.7552,
                "matched_fragments": 259,
                "total_fragments": 1473,
                "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": 77.7471,
                "matched_fragments": 218,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hyphomicrobium zavarzinii",
                "strain": "strain=ZV-622",
                "accession": "GCA_000383415.1",
                "taxid": 48292,
                "species_taxid": 48292,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4738,
                "matched_fragments": 256,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hyphomicrobium sulfonivorans",
                "strain": "strain=S1",
                "accession": "GCA_016125985.1",
                "taxid": 121290,
                "species_taxid": 121290,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1385,
                "matched_fragments": 201,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hyphomicrobium sulfonivorans",
                "strain": "strain=S1",
                "accession": "GCA_013306565.1",
                "taxid": 121290,
                "species_taxid": 121290,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.0979,
                "matched_fragments": 200,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Starkeya koreensis",
                "strain": "strain=Jip08",
                "accession": "GCA_023016525.1",
                "taxid": 266121,
                "species_taxid": 266121,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.9435,
                "matched_fragments": 136,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mesorhizobium zhangyense",
                "strain": "strain=CGMCC 1.15528",
                "accession": "GCA_011045115.1",
                "taxid": 1776730,
                "species_taxid": 1776730,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8789,
                "matched_fragments": 114,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Starkeya novella",
                "strain": "strain=DSM 506",
                "accession": "GCA_000092925.1",
                "taxid": 921,
                "species_taxid": 921,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8562,
                "matched_fragments": 132,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mesorhizobium carmichaelinearum",
                "strain": "strain=ICMP 18942",
                "accession": "GCA_900199455.1",
                "taxid": 1208188,
                "species_taxid": 1208188,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8165,
                "matched_fragments": 132,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shinella sumterensis",
                "strain": "strain=MEC087",
                "accession": "GCA_004514425.2",
                "taxid": 1967501,
                "species_taxid": 1967501,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7542,
                "matched_fragments": 120,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhizobium indicum",
                "strain": "strain=JKLM 12A2",
                "accession": "GCA_005862305.2",
                "taxid": 2583231,
                "species_taxid": 2583231,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.708,
                "matched_fragments": 124,
                "total_fragments": 1473,
                "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": 76.6574,
                "matched_fragments": 110,
                "total_fragments": 1473,
                "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": 76.6325,
                "matched_fragments": 143,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Kaistia adipata",
                "strain": "strain=DSM 17808",
                "accession": "GCA_000423225.1",
                "taxid": 166954,
                "species_taxid": 166954,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.6013,
                "matched_fragments": 145,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Methylobacterium cerastii",
                "strain": "strain=DSM 23679",
                "accession": "GCA_022179125.1",
                "taxid": 932741,
                "species_taxid": 932741,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.5926,
                "matched_fragments": 122,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rhodopseudomonas faecalis",
                "strain": "strain=JCM 11668",
                "accession": "GCA_003217325.1",
                "taxid": 99655,
                "species_taxid": 99655,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.5053,
                "matched_fragments": 124,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Shinella pollutisoli",
                "strain": "strain=KCTC 52677",
                "accession": "GCA_024609765.1",
                "taxid": 2250594,
                "species_taxid": 2250594,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3907,
                "matched_fragments": 149,
                "total_fragments": 1473,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_900116175.1",
                "gtdb_species": "s__Hyphomicrobium facile",
                "ani": 100.0,
                "matched_fragments": 1472,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "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_000384335.2",
                "gtdb_species": "s__Hyphomicrobium sp000384335",
                "ani": 84.9008,
                "matched_fragments": 1074,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "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_003987725.1",
                "gtdb_species": "s__Hyphomicrobium sp003987725",
                "ani": 84.1893,
                "matched_fragments": 1028,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.09",
                "min_intra_species_ani": "98.09",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.97",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_018242295.1",
                "gtdb_species": "s__Hyphomicrobium sp018242295",
                "ani": 83.9801,
                "matched_fragments": 1007,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.15",
                "min_intra_species_ani": "97.15",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.97",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000253295.1",
                "gtdb_species": "s__Hyphomicrobium sp000253295",
                "ani": 80.087,
                "matched_fragments": 686,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.46",
                "min_intra_species_ani": "99.46",
                "mean_intra_species_af": "0.96",
                "min_intra_species_af": "0.96",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_018242215.1",
                "gtdb_species": "s__Hyphomicrobium sp018242215",
                "ani": 79.9149,
                "matched_fragments": 620,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "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_003987855.1",
                "gtdb_species": "s__Hyphomicrobium sp003987855",
                "ani": 79.3349,
                "matched_fragments": 568,
                "total_fragments": 1473,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Hyphomicrobiaceae;g__Hyphomicrobium",
                "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": 0.041,
        "cell_length": 0.262,
        "doubling_h": null,
        "growth_tmp": 30.0,
        "optimum_tmp": 30.0,
        "optimum_ph": null,
        "genome_size": 4425354.0,
        "gc_content": 62.066,
        "coding_genes": 3576.8,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 46.333,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "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": [
        "Hyphomicrobium",
        "facile"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}