{
    "type": "genome",
    "identifier": "GCF_001675045.1",
    "organism": "Paenibacillus oryzae",
    "title": "Paenibacillus oryzae",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "SinoGenoMax Co.,Ltd",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_001675045.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN04954875",
        "wgs_master": "LYPA00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1844972",
        "species_taxid": "1844972",
        "organism_name": "Paenibacillus oryzae",
        "infraspecific_name": "strain=1DrF-4",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2016/06/21",
        "asm_name": "ASM167504v1",
        "asm_submitter": "SinoGenoMax Co.,Ltd",
        "gbrs_paired_asm": "GCA_001675045.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/675/045/GCF_001675045.1_ASM167504v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "5905968",
        "genome_size_ungapped": "5905217",
        "gc_percent": "49.500000",
        "replicon_count": "0",
        "scaffold_count": "80",
        "contig_count": "80",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_001675045.1-RS_2024_05_02",
        "annotation_date": "2024-05-02",
        "total_gene_count": "5182",
        "protein_coding_gene_count": "5050",
        "non_coding_gene_count": "84",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2016-06-21",
    "dateModified": "2016-06-21",
    "datePublished": "2016-06-21",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Paenibacillus oryzae"
        ],
        "sample_taxid": [
            "1844972"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "China"
        ],
        "sample_host_location_id": [],
        "data_size": "1.677 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": 28.0,
            "max": 28.0
        },
        "completeness": 100.0,
        "contamination": 0.0,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "5905968",
        "Number of Sequences": "80",
        "Longest Sequences (bp)": "483847",
        "N50 (bp)": "153070",
        "Gap Ratio (%)": "0.012987",
        "GCcontent (%)": "49.5",
        "Number of CDSs": "5225",
        "Average Protein Length": "328.3",
        "Coding Ratio (%)": "87.1",
        "Number of rRNAs": "7",
        "Number of tRNAs": "67",
        "Number of CRISPRs": "6"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Paenibacillus oryzae",
                "strain": "strain=1DrF-4",
                "accession": "GCA_001675045.1",
                "taxid": 1844972,
                "species_taxid": 1844972,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1928,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Paenibacillus pinisoli",
                "strain": "strain=JCM 19203",
                "accession": "GCA_003605435.1",
                "taxid": 1276110,
                "species_taxid": 1276110,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.422,
                "matched_fragments": 341,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus paeoniae",
                "strain": "strain=M4BSY-1",
                "accession": "GCA_003388735.1",
                "taxid": 2292705,
                "species_taxid": 2292705,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.3544,
                "matched_fragments": 307,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus harenae",
                "strain": "strain=DSM 16969",
                "accession": "GCA_000422465.1",
                "taxid": 306543,
                "species_taxid": 306543,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.6566,
                "matched_fragments": 260,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus prosopidis",
                "strain": "strain=CECT 7506",
                "accession": "GCA_003337375.1",
                "taxid": 630520,
                "species_taxid": 630520,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.6468,
                "matched_fragments": 234,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus alkaliterrae",
                "strain": "strain=DSM 17040",
                "accession": "GCA_021532375.1",
                "taxid": 320909,
                "species_taxid": 320909,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5828,
                "matched_fragments": 246,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus glycanilyticus",
                "strain": "strain=NBRC 16618",
                "accession": "GCA_004000805.1",
                "taxid": 126569,
                "species_taxid": 126569,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.2084,
                "matched_fragments": 241,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus algorifonticola",
                "strain": "strain=XJ259",
                "accession": "GCA_000971975.1",
                "taxid": 684063,
                "species_taxid": 684063,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1497,
                "matched_fragments": 237,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus beijingensis",
                "strain": "strain=DSM 24997",
                "accession": "GCA_000961095.1",
                "taxid": 1126833,
                "species_taxid": 1126833,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1453,
                "matched_fragments": 160,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus algorifonticola",
                "strain": "strain=CGMCC 1.10223",
                "accession": "GCA_900112925.1",
                "taxid": 684063,
                "species_taxid": 684063,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1104,
                "matched_fragments": 238,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus timonensis",
                "strain": "strain=DSM 16943",
                "accession": "GCA_022427145.1",
                "taxid": 225915,
                "species_taxid": 225915,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.0808,
                "matched_fragments": 120,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus phyllosphaerae",
                "strain": "strain=CECT 5862",
                "accession": "GCA_014192105.1",
                "taxid": 274593,
                "species_taxid": 274593,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.86,
                "matched_fragments": 145,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus lignilyticus",
                "strain": "strain=DLE-14",
                "accession": "GCA_017942085.1",
                "taxid": 1172615,
                "species_taxid": 1172615,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8309,
                "matched_fragments": 140,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus periandrae",
                "strain": "strain=PM10",
                "accession": "GCA_022458865.1",
                "taxid": 1761741,
                "species_taxid": 1761741,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.6265,
                "matched_fragments": 71,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus farraposensis",
                "strain": "strain=UY79",
                "accession": "GCA_020736845.1",
                "taxid": 2807095,
                "species_taxid": 2807095,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.6018,
                "matched_fragments": 62,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus wulumuqiensis",
                "strain": "strain=Y24",
                "accession": "GCA_000971965.1",
                "taxid": 1567107,
                "species_taxid": 1567107,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3737,
                "matched_fragments": 62,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Paenibacillus faecalis",
                "strain": "strain=Marseille-P3787",
                "accession": "GCA_900289175.1",
                "taxid": 2079532,
                "species_taxid": 2079532,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.3574,
                "matched_fragments": 54,
                "total_fragments": 1932,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_001675045.1",
                "gtdb_species": "s__Paenibacillus_C oryzae",
                "ani": 100.0,
                "matched_fragments": 1928,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_003605435.1",
                "gtdb_species": "s__Paenibacillus_C pinisoli",
                "ani": 78.422,
                "matched_fragments": 341,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_003388735.1",
                "gtdb_species": "s__Paenibacillus_C paeoniae",
                "ani": 78.3488,
                "matched_fragments": 308,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_003591485.1",
                "gtdb_species": "s__Paenibacillus_C sp003591485",
                "ani": 78.3223,
                "matched_fragments": 301,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_005222705.1",
                "gtdb_species": "s__Paenibacillus_C sp005222705",
                "ani": 77.8822,
                "matched_fragments": 344,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_003112455.1",
                "gtdb_species": "s__Paenibacillus_C agaridevorans",
                "ani": 77.8701,
                "matched_fragments": 318,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.67",
                "min_intra_species_ani": "95.87",
                "mean_intra_species_af": "0.80",
                "min_intra_species_af": "0.78",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_016019935.1",
                "gtdb_species": "s__Paenibacillus_C sp016019935",
                "ani": 77.799,
                "matched_fragments": 175,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_011947265.1",
                "gtdb_species": "s__Paenibacillus_C sp011947265",
                "ani": 77.7088,
                "matched_fragments": 277,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_014705655.1",
                "gtdb_species": "s__Paenibacillus_C sp014705655",
                "ani": 77.5243,
                "matched_fragments": 262,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_006345825.1",
                "gtdb_species": "s__Paenibacillus_C paridis",
                "ani": 77.4564,
                "matched_fragments": 233,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_001280845.1",
                "gtdb_species": "s__Paenibacillus_C sp001280845",
                "ani": 77.4078,
                "matched_fragments": 202,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_C",
                "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_014192105.1",
                "gtdb_species": "s__Paenibacillus_Z phyllosphaerae",
                "ani": 76.8768,
                "matched_fragments": 145,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_Z",
                "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_000971965.1",
                "gtdb_species": "s__Paenibacillus_J wulumuqiensis",
                "ani": 76.4516,
                "matched_fragments": 63,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Paenibacillus_J",
                "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_004514475.1",
                "gtdb_species": "s__MEC069 sp004514475",
                "ani": 76.438,
                "matched_fragments": 119,
                "total_fragments": 1932,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__MEC069",
                "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": -0.187,
        "cell_length": 0.433,
        "doubling_h": 0.565,
        "growth_tmp": 30.106,
        "optimum_tmp": 31.323,
        "optimum_ph": 7.238,
        "genome_size": 6197949.921,
        "gc_content": 50.283,
        "coding_genes": 5381.029,
        "rRNA16S_genes": 10.237,
        "tRNA_genes": 93.313,
        "gram_stain": 1.0,
        "sporulation": 1.0,
        "motility": 0.918,
        "range_salinity": 0.0,
        "facultative_respiration": 0.347,
        "anaerobic_respiration": 0.007,
        "aerobic_respiration": 0.645,
        "mesophilic_range_tmp": 0.9,
        "thermophilic_range_tmp": 0.033,
        "psychrophilic_range_tmp": 0.066,
        "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": [
        "Paenibacillus",
        "oryzae"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}