{
    "type": "genome",
    "identifier": "GCA_004293085.1",
    "organism": "Runella slithyformis",
    "title": "Runella slithyformis",
    "description": "derived from metagenome; fragmented assembly",
    "data type": "Genome sequencing and assembly",
    "organization": "Jill Banfield's Lab at Berkeley",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCA_004293085.1",
        "bioproject": "PRJNA448579",
        "biosample": "SAMN10167087",
        "wgs_master": "RDYG00000000.1",
        "refseq_category": "na",
        "taxid": "106",
        "species_taxid": "106",
        "organism_name": "Runella slithyformis",
        "infraspecific_name": "",
        "isolate": "PH2015_08D_46_7",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/02/22",
        "asm_name": "ASM429308v1",
        "submitter": "Jill Banfield's Lab at Berkeley",
        "gbrs_paired_asm": "na",
        "paired_asm_comp": "na",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/293/085/GCA_004293085.1_ASM429308v1",
        "excluded_from_refseq": "derived from metagenome; fragmented assembly",
        "relation_to_type_material": "",
        "asm_not_live_date": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-02-22",
    "dateModified": "2019-02-22",
    "datePublished": "2019-02-22",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Runella slithyformis"
        ],
        "sample_taxid": [
            "106"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "USA: California, Eel River, South Fork Eel River near Phillipsville"
        ],
        "sample_host_location_id": [],
        "data_size": "0.780 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 81.1,
        "contamination": 0.98,
        "strain_heterogeneity": 50.0,
        "genome_count": 1
    },
    "data_type": "MAG",
    "data_source": "INSDC",
    "_dfast": {
        "Total Sequence Length (bp)": "2736361",
        "Number of Sequences": "736",
        "Longest Sequences (bp)": "22373",
        "N50 (bp)": "4818",
        "Gap Ratio (%)": "0.008771",
        "GCcontent (%)": "46.2",
        "Number of CDSs": "1830",
        "Average Protein Length": "298.7",
        "Coding Ratio (%)": "59.9",
        "Number of rRNAs": "0",
        "Number of tRNAs": "17",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Runella slithyformis",
                "strain": "strain=DSM 19594",
                "accession": "GCA_000218895.1",
                "taxid": 106,
                "species_taxid": 106,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.8426,
                "matched_fragments": 77,
                "total_fragments": 527,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Runella defluvii",
                "strain": "strain=DSM 17976",
                "accession": "GCA_014195535.1",
                "taxid": 370973,
                "species_taxid": 370973,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.4929,
                "matched_fragments": 88,
                "total_fragments": 527,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Runella limosa",
                "strain": "strain=DSM 17973",
                "accession": "GCA_000482465.1",
                "taxid": 370978,
                "species_taxid": 370978,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.135,
                "matched_fragments": 83,
                "total_fragments": 527,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Runella rosea",
                "strain": "strain=HYN0085",
                "accession": "GCA_003325355.1",
                "taxid": 2259595,
                "species_taxid": 2259595,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.7218,
                "matched_fragments": 82,
                "total_fragments": 527,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Runella aurantiaca",
                "strain": "strain=YX9",
                "accession": "GCA_003339505.1",
                "taxid": 2282308,
                "species_taxid": 2282308,
                "relation_to_type": "type",
                "validated": true,
                "ani": 75.6841,
                "matched_fragments": 86,
                "total_fragments": 527,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 81.1,
            "contamination": 0.98,
            "strain_heterogeneity": 50.0
        },
        "gtdb_result": [
            {
                "accession": "GCA_004293645.1",
                "gtdb_species": "s__REAB01 sp004293645",
                "ani": 98.1553,
                "matched_fragments": 474,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__REAB01",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.03",
                "min_intra_species_ani": "98.31",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 11,
                "status": "conclusive"
            },
            {
                "accession": "GCF_000218895.1",
                "gtdb_species": "s__Runella slithyformis",
                "ani": 76.8426,
                "matched_fragments": 77,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Runella",
                "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_014195535.1",
                "gtdb_species": "s__Runella defluvii",
                "ani": 76.4703,
                "matched_fragments": 89,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Runella",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.53",
                "min_intra_species_ani": "95.36",
                "mean_intra_species_af": "0.92",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_003711225.1",
                "gtdb_species": "s__Runella sp003711225",
                "ani": 75.7748,
                "matched_fragments": 87,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Runella",
                "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_003325355.1",
                "gtdb_species": "s__Runella sp003325355",
                "ani": 75.7218,
                "matched_fragments": 82,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Runella",
                "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_003339505.1",
                "gtdb_species": "s__Runella sp003339505",
                "ani": 75.6841,
                "matched_fragments": 86,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Runella",
                "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_013298215.1",
                "gtdb_species": "s__JAAFKE01 sp013298215",
                "ani": 75.5973,
                "matched_fragments": 85,
                "total_fragments": 527,
                "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__JAAFKE01",
                "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": -0.155,
        "cell_length": 0.607,
        "doubling_h": null,
        "growth_tmp": 26.0,
        "optimum_tmp": 25.0,
        "optimum_ph": 7.75,
        "genome_size": 6919729.2,
        "gc_content": 44.098,
        "coding_genes": 5751.333,
        "rRNA16S_genes": 2.0,
        "tRNA_genes": 42.0,
        "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": 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
    },
    "_gtdb_taxon": [
        "d__Bacteria",
        "p__Bacteroidota",
        "c__Bacteroidia",
        "o__Cytophagales",
        "f__Spirosomataceae",
        "g__REAB01",
        "s__REAB01 sp004293645"
    ],
    "_genome_taxon": [
        "Runella",
        "slithyformis",
        "d__Bacteria",
        "p__Bacteroidota",
        "c__Bacteroidia",
        "o__Cytophagales",
        "f__Spirosomataceae",
        "g__REAB01",
        "s__REAB01 sp004293645",
        "Bacteria",
        "Bacteroidota",
        "Bacteroidia",
        "Cytophagales",
        "Spirosomataceae",
        "REAB01",
        "REAB01",
        "sp004293645"
    ],
    "_meo": [
        {
            "id": "MEO_0000116",
            "label": "biofilm"
        },
        {
            "id": "MEO_0000082",
            "label": "river"
        }
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}