{
    "type": "genome",
    "identifier": "GCF_000425405.1",
    "organism": "Ferrimonas kyonanensis DSM 18153",
    "title": "Ferrimonas kyonanensis DSM 18153",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000425405.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02441539",
        "wgs_master": "AUDJ00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1121879",
        "species_taxid": "364763",
        "organism_name": "Ferrimonas kyonanensis DSM 18153",
        "infraspecific_name": "strain=DSM 18153",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/07/11",
        "asm_name": "ASM42540v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_000425405.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/425/405/GCF_000425405.1_ASM42540v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "4930960",
        "genome_size_ungapped": "4918376",
        "gc_percent": "57.000000",
        "replicon_count": "0",
        "scaffold_count": "40",
        "contig_count": "56",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000425405.1-RS_2024_05_02",
        "annotation_date": "2024-05-02",
        "total_gene_count": "4526",
        "protein_coding_gene_count": "4433",
        "non_coding_gene_count": "66",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-07-11",
    "dateModified": "2013-07-11",
    "datePublished": "2013-07-11",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Ferrimonas kyonanensis DSM 18153"
        ],
        "sample_taxid": [
            "1121879"
        ],
        "sample_host_organism": [
            "Ruditapes philippinarum"
        ],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "Japan"
        ],
        "sample_host_location_id": [],
        "data_size": "1.394 MB",
        "sample_ph_range": {
            "min": 69.0,
            "max": 69.0
        },
        "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)": "4930960",
        "Number of Sequences": "40",
        "Longest Sequences (bp)": "548802",
        "N50 (bp)": "236552",
        "Gap Ratio (%)": "0.255204",
        "GCcontent (%)": "56.9",
        "Number of CDSs": "4500",
        "Average Protein Length": "319.8",
        "Coding Ratio (%)": "87.6",
        "Number of rRNAs": "2",
        "Number of tRNAs": "55",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Ferrimonas kyonanensis",
                "strain": "strain=DSM 18153",
                "accession": "GCA_000425405.1",
                "taxid": 364763,
                "species_taxid": 364763,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1617,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Ferrimonas sediminum",
                "strain": "strain=DSM 23317",
                "accession": "GCA_900100175.1",
                "taxid": 718193,
                "species_taxid": 718193,
                "relation_to_type": "type",
                "validated": true,
                "ani": 88.8858,
                "matched_fragments": 1271,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Ferrimonas futtsuensis",
                "strain": "strain=DSM 18154",
                "accession": "GCA_000422645.1",
                "taxid": 364764,
                "species_taxid": 364764,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.5274,
                "matched_fragments": 833,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Ferrimonas sediminicola",
                "strain": "strain=IMCC35001",
                "accession": "GCA_005116715.1",
                "taxid": 2569538,
                "species_taxid": 2569538,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.2141,
                "matched_fragments": 803,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Ferrimonas aestuarii",
                "strain": "strain=IMCC35002",
                "accession": "GCA_005116665.1",
                "taxid": 2569539,
                "species_taxid": 2569539,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.8936,
                "matched_fragments": 508,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Ferrimonas marina",
                "strain": "strain=DSM 16917",
                "accession": "GCA_900129905.1",
                "taxid": 299255,
                "species_taxid": 299255,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.1568,
                "matched_fragments": 368,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Microbulbifer elongatus",
                "strain": "strain=DSM 6810",
                "accession": "GCA_022554105.1",
                "taxid": 86173,
                "species_taxid": 86173,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.2229,
                "matched_fragments": 65,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Microbulbifer elongatus",
                "strain": "strain=DSM 6810",
                "accession": "GCA_021165935.1",
                "taxid": 86173,
                "species_taxid": 86173,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.1956,
                "matched_fragments": 67,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stutzerimonas kunmingensis",
                "strain": "strain=DSM 25974",
                "accession": "GCA_024397575.1",
                "taxid": 1211807,
                "species_taxid": 1211807,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.8489,
                "matched_fragments": 71,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halomonas campisalis",
                "strain": "strain=A4",
                "accession": "GCA_022341425.1",
                "taxid": 74661,
                "species_taxid": 74661,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.7203,
                "matched_fragments": 81,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Stutzerimonas chloritidismutans",
                "strain": "strain=AW-1",
                "accession": "GCA_000495915.1",
                "taxid": 203192,
                "species_taxid": 203192,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.546,
                "matched_fragments": 81,
                "total_fragments": 1622,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000425405.1",
                "gtdb_species": "s__Ferrimonas kyonanensis",
                "ani": 100.0,
                "matched_fragments": 1617,
                "total_fragments": 1622,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Ferrimonas",
                "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_900100175.1",
                "gtdb_species": "s__Ferrimonas sediminum",
                "ani": 88.8858,
                "matched_fragments": 1271,
                "total_fragments": 1622,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Ferrimonas",
                "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_000422645.1",
                "gtdb_species": "s__Ferrimonas futtsuensis",
                "ani": 80.5301,
                "matched_fragments": 833,
                "total_fragments": 1622,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Ferrimonas",
                "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_005116715.1",
                "gtdb_species": "s__Ferrimonas sp005116715",
                "ani": 80.2212,
                "matched_fragments": 802,
                "total_fragments": 1622,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Ferrimonas",
                "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_005116665.1",
                "gtdb_species": "s__Ferrimonas sp005116665",
                "ani": 78.8845,
                "matched_fragments": 509,
                "total_fragments": 1622,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Ferrimonas",
                "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_900129905.1",
                "gtdb_species": "s__Ferrimonas marina",
                "ani": 78.1568,
                "matched_fragments": 368,
                "total_fragments": 1622,
                "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Ferrimonas",
                "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": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.302,
        "cell_length": -0.155,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "optimum_tmp": 26.5,
        "optimum_ph": 7.3,
        "genome_size": 4925616.5,
        "gc_content": 56.9,
        "coding_genes": 3747.333,
        "rRNA16S_genes": 7.0,
        "tRNA_genes": 121.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 1.0,
        "range_salinity": null,
        "facultative_respiration": 1.0,
        "anaerobic_respiration": 0.0,
        "aerobic_respiration": 0.0,
        "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": [
        "Ferrimonas",
        "kyonanensis",
        "DSM",
        "18153"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}