{
    "type": "genome",
    "identifier": "GCF_003201815.1",
    "organism": "Undibacterium pigrum",
    "title": "Undibacterium pigrum",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_003201815.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN09074686",
        "wgs_master": "QJKB00000000.1",
        "refseq_category": "reference genome",
        "taxid": "401470",
        "species_taxid": "401470",
        "organism_name": "Undibacterium pigrum",
        "infraspecific_name": "strain=DSM 19792",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/06/07",
        "asm_name": "ASM320181v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_003201815.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/201/815/GCF_003201815.1_ASM320181v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "6407125",
        "genome_size_ungapped": "6405725",
        "gc_percent": "50.500000",
        "replicon_count": "0",
        "scaffold_count": "44",
        "contig_count": "44",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_003201815.1-RS_2024_05_04",
        "annotation_date": "2024-05-04",
        "total_gene_count": "5749",
        "protein_coding_gene_count": "5633",
        "non_coding_gene_count": "83",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-06-07",
    "dateModified": "2018-06-07",
    "datePublished": "2018-06-07",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Undibacterium pigrum"
        ],
        "sample_taxid": [
            "401470"
        ],
        "sample_host_organism": [
            "not applicable"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "missing"
        ],
        "sample_host_location_id": [],
        "data_size": "1.813 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)": "6407125",
        "Number of Sequences": "44",
        "Longest Sequences (bp)": "1587214",
        "N50 (bp)": "393311",
        "Gap Ratio (%)": "0.021851",
        "GCcontent (%)": "50.7",
        "Number of CDSs": "5621",
        "Average Protein Length": "330.3",
        "Coding Ratio (%)": "86.9",
        "Number of rRNAs": "2",
        "Number of tRNAs": "74",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Undibacterium pigrum",
                "strain": "strain=DSM 19792",
                "accession": "GCA_003201815.1",
                "taxid": 401470,
                "species_taxid": 401470,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 2111,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Undibacterium umbellatum",
                "strain": "strain=NL8W",
                "accession": "GCA_014284125.1",
                "taxid": 2762300,
                "species_taxid": 2762300,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.6407,
                "matched_fragments": 1663,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium hunanense",
                "strain": "strain=CY18W",
                "accession": "GCA_014284335.1",
                "taxid": 2762292,
                "species_taxid": 2762292,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.3078,
                "matched_fragments": 1215,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium jejuense",
                "strain": "strain=KACC 12607",
                "accession": "GCA_014284255.1",
                "taxid": 1344949,
                "species_taxid": 1344949,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.9014,
                "matched_fragments": 331,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium crateris",
                "strain": "strain=B2R-29",
                "accession": "GCA_010078235.1",
                "taxid": 2528175,
                "species_taxid": 2528175,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8013,
                "matched_fragments": 438,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium aquatile",
                "strain": "strain=CCTCC AB 2015119",
                "accession": "GCA_014699135.1",
                "taxid": 1537398,
                "species_taxid": 1537398,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7588,
                "matched_fragments": 418,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium rivi",
                "strain": "strain=FT147W",
                "accession": "GCA_018139565.1",
                "taxid": 2828729,
                "species_taxid": 2828729,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7399,
                "matched_fragments": 406,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium curvum",
                "strain": "strain=CY22W",
                "accession": "GCA_014284235.1",
                "taxid": 2762294,
                "species_taxid": 2762294,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.6419,
                "matched_fragments": 439,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Undibacterium rugosum",
                "strain": "strain=CY7W",
                "accession": "GCA_014284365.1",
                "taxid": 2762291,
                "species_taxid": 2762291,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.63,
                "matched_fragments": 388,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Collimonas pratensis",
                "strain": "strain=Ter91",
                "accession": "GCA_001584185.1",
                "taxid": 279113,
                "species_taxid": 279113,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8969,
                "matched_fragments": 203,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Noviherbaspirillum saxi",
                "strain": "strain=K1R23-30",
                "accession": "GCA_003591035.1",
                "taxid": 2320863,
                "species_taxid": 2320863,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8427,
                "matched_fragments": 179,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rugamonas fusca",
                "strain": "strain=FT3S",
                "accession": "GCA_014042365.1",
                "taxid": 2758568,
                "species_taxid": 2758568,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7061,
                "matched_fragments": 152,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Rugamonas brunnea",
                "strain": "strain=LX20W",
                "accession": "GCA_014042345.1",
                "taxid": 2758569,
                "species_taxid": 2758569,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.654,
                "matched_fragments": 145,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Duganella phyllosphaerae",
                "strain": "strain=T54",
                "accession": "GCA_001758785.1",
                "taxid": 762836,
                "species_taxid": 762836,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4833,
                "matched_fragments": 150,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Massilia norwichensis",
                "strain": "strain=LMG 28164",
                "accession": "GCA_024753245.1",
                "taxid": 1442366,
                "species_taxid": 1442366,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3901,
                "matched_fragments": 114,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Noviherbaspirillum aridicola",
                "strain": "strain=NCCP-691",
                "accession": "GCA_019656455.1",
                "taxid": 2849687,
                "species_taxid": 2849687,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3425,
                "matched_fragments": 104,
                "total_fragments": 2114,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_003201815.1",
                "gtdb_species": "s__Undibacterium pigrum",
                "ani": 100.0,
                "matched_fragments": 2111,
                "total_fragments": 2114,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium",
                "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_014284125.1",
                "gtdb_species": "s__Undibacterium sp014284125",
                "ani": 86.6389,
                "matched_fragments": 1664,
                "total_fragments": 2114,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium",
                "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_009937975.1",
                "gtdb_species": "s__Undibacterium sp009937975",
                "ani": 86.5261,
                "matched_fragments": 1616,
                "total_fragments": 2114,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium",
                "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_009937955.1",
                "gtdb_species": "s__Undibacterium sp009937955",
                "ani": 86.3946,
                "matched_fragments": 1573,
                "total_fragments": 2114,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium",
                "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_016200895.1",
                "gtdb_species": "s__Undibacterium sp016200895",
                "ani": 86.0188,
                "matched_fragments": 1399,
                "total_fragments": 2114,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium",
                "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_014284335.1",
                "gtdb_species": "s__Undibacterium sp014284335",
                "ani": 82.282,
                "matched_fragments": 1217,
                "total_fragments": 2114,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium",
                "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": -0.379,
        "cell_length": 0.249,
        "doubling_h": null,
        "growth_tmp": 25.0,
        "optimum_tmp": null,
        "optimum_ph": 6.5,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 1.0,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "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": [
        "Undibacterium",
        "pigrum"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}