{
    "type": "genome",
    "identifier": "GCF_004346095.1",
    "organism": "Faecalimonas umbilicata",
    "title": "Faecalimonas umbilicata",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "DOE Joint Genome Institute",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_004346095.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN10362951",
        "wgs_master": "SLZV00000000.1",
        "refseq_category": "na",
        "taxid": "1912855",
        "species_taxid": "1912855",
        "organism_name": "Faecalimonas umbilicata",
        "infraspecific_name": "strain=DSM 103426",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2019/03/11",
        "asm_name": "ASM434609v1",
        "asm_submitter": "DOE Joint Genome Institute",
        "gbrs_paired_asm": "GCA_004346095.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/346/095/GCF_004346095.1_ASM434609v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3080497",
        "genome_size_ungapped": "3080400",
        "gc_percent": "41.500000",
        "replicon_count": "0",
        "scaffold_count": "65",
        "contig_count": "65",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)",
        "annotation_date": "2024-02-28",
        "total_gene_count": "3016",
        "protein_coding_gene_count": "2902",
        "non_coding_gene_count": "62",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2019-03-11",
    "dateModified": "2019-03-11",
    "datePublished": "2019-03-11",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Faecalimonas umbilicata"
        ],
        "sample_taxid": [
            "1912855"
        ],
        "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": "0.870 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)": "3080497",
        "Number of Sequences": "65",
        "Longest Sequences (bp)": "191621",
        "N50 (bp)": "80011",
        "Gap Ratio (%)": "0.003149",
        "GCcontent (%)": "41.6",
        "Number of CDSs": "2995",
        "Average Protein Length": "305.0",
        "Coding Ratio (%)": "88.9",
        "Number of rRNAs": "0",
        "Number of tRNAs": "55",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Faecalimonas umbilicata",
                "strain": "strain=DSM 103426",
                "accession": "GCA_004346095.1",
                "taxid": 1912855,
                "species_taxid": 1912855,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 983,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Faecalimonas umbilicata",
                "strain": "strain=EGH7",
                "accession": "GCA_003402615.1",
                "taxid": 1912855,
                "species_taxid": 1912855,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9991,
                "matched_fragments": 990,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Blautia wexlerae",
                "strain": "strain=DSM 19850",
                "accession": "GCA_025148125.1",
                "taxid": 418240,
                "species_taxid": 418240,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 81.5496,
                "matched_fragments": 100,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Coprococcus phoceensis",
                "strain": "strain=Marseille-P3062",
                "accession": "GCA_900104635.1",
                "taxid": 1870993,
                "species_taxid": 1870993,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.5594,
                "matched_fragments": 189,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Coprococcus comes",
                "strain": "strain=ATCC 27758",
                "accession": "GCA_025149785.1",
                "taxid": 410072,
                "species_taxid": 410072,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.355,
                "matched_fragments": 143,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Jingyaoa shaoxingensis",
                "strain": "strain=NSJ-46",
                "accession": "GCA_014385005.1",
                "taxid": 2763671,
                "species_taxid": 2763671,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.7411,
                "matched_fragments": 66,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Dorea phocaeensis",
                "strain": "strain=Marseille-P4003",
                "accession": "GCA_900240315.1",
                "taxid": 2040291,
                "species_taxid": 2040291,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.4545,
                "matched_fragments": 108,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Dorea formicigenerans",
                "strain": "strain=ATCC 27755",
                "accession": "GCA_025150245.1",
                "taxid": 39486,
                "species_taxid": 39486,
                "relation_to_type": "suspected-type",
                "validated": true,
                "ani": 78.4219,
                "matched_fragments": 129,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Hespellia stercorisuis",
                "strain": "strain=DSM 15480",
                "accession": "GCA_900142165.1",
                "taxid": 180311,
                "species_taxid": 180311,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.2546,
                "matched_fragments": 101,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "[Ruminococcus] gnavus",
                "strain": "strain=ATCC 29149",
                "accession": "GCA_025152275.1",
                "taxid": 33038,
                "species_taxid": 33038,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.1778,
                "matched_fragments": 167,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Mediterraneibacter butyricigenes",
                "strain": "strain=KCTC 15684",
                "accession": "GCA_003574295.1",
                "taxid": 2316025,
                "species_taxid": 2316025,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.8655,
                "matched_fragments": 111,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Faecalicatena faecalis",
                "strain": "strain=AGMB00832",
                "accession": "GCA_012524165.2",
                "taxid": 2726362,
                "species_taxid": 2726362,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.5812,
                "matched_fragments": 111,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Roseburia porci",
                "strain": "strain=MUC/MUC-530-WT-4D",
                "accession": "GCA_009695765.1",
                "taxid": 2605790,
                "species_taxid": 2605790,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.4978,
                "matched_fragments": 59,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Merdimonas faecis",
                "strain": "strain=BR31",
                "accession": "GCA_001754075.1",
                "taxid": 1653435,
                "species_taxid": 1653435,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.2924,
                "matched_fragments": 95,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "[Ruminococcus] torques",
                "strain": "strain=ATCC 27756",
                "accession": "GCA_000153925.1",
                "taxid": 33039,
                "species_taxid": 33039,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1797,
                "matched_fragments": 99,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "[Ruminococcus] lactaris",
                "strain": "strain=ATCC 29176",
                "accession": "GCA_025152405.1",
                "taxid": 46228,
                "species_taxid": 46228,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1386,
                "matched_fragments": 124,
                "total_fragments": 990,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_004346095.1",
                "gtdb_species": "s__Faecalimonas umbilicata",
                "ani": 100.0,
                "matched_fragments": 983,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.30",
                "min_intra_species_ani": "97.78",
                "mean_intra_species_af": "0.83",
                "min_intra_species_af": "0.78",
                "num_clustered_genomes": 20,
                "status": "conclusive"
            },
            {
                "accession": "GCA_900546325.1",
                "gtdb_species": "s__Faecalimonas sp900546325",
                "ani": 87.5263,
                "matched_fragments": 632,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.83",
                "min_intra_species_ani": "99.66",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.88",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_003435815.1",
                "gtdb_species": "s__CAG-317 sp000433215",
                "ani": 79.8152,
                "matched_fragments": 145,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-317",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.71",
                "min_intra_species_ani": "98.41",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 9,
                "status": "-"
            },
            {
                "accession": "GCF_900104635.1",
                "gtdb_species": "s__Faecalimonas phoceensis",
                "ani": 79.5858,
                "matched_fragments": 188,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.10",
                "min_intra_species_ani": "95.01",
                "mean_intra_species_af": "0.81",
                "min_intra_species_af": "0.60",
                "num_clustered_genomes": 21,
                "status": "-"
            },
            {
                "accession": "GCA_902381685.1",
                "gtdb_species": "s__Faecalimonas sp000209385",
                "ani": 79.4602,
                "matched_fragments": 151,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.49",
                "min_intra_species_ani": "98.98",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_018228665.1",
                "gtdb_species": "s__UBA9414 sp003458885",
                "ani": 79.3654,
                "matched_fragments": 176,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA9414",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.84",
                "min_intra_species_ani": "97.84",
                "mean_intra_species_af": "0.85",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_900550235.1",
                "gtdb_species": "s__Faecalimonas sp900550235",
                "ani": 79.3,
                "matched_fragments": 135,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "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_000155875.1",
                "gtdb_species": "s__Bariatricus comes",
                "ani": 78.8795,
                "matched_fragments": 133,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Bariatricus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.22",
                "min_intra_species_ani": "97.07",
                "mean_intra_species_af": "0.81",
                "min_intra_species_af": "0.76",
                "num_clustered_genomes": 58,
                "status": "-"
            },
            {
                "accession": "GCA_900551895.1",
                "gtdb_species": "s__Faecalimonas sp900551895",
                "ani": 78.662,
                "matched_fragments": 121,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.69",
                "min_intra_species_ani": "98.58",
                "mean_intra_species_af": "0.83",
                "min_intra_species_af": "0.80",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_013300725.1",
                "gtdb_species": "s__Bariatricus comes_A",
                "ani": 78.484,
                "matched_fragments": 132,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Bariatricus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.85",
                "min_intra_species_ani": "98.85",
                "mean_intra_species_af": "0.86",
                "min_intra_species_af": "0.86",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCA_018365895.1",
                "gtdb_species": "s__UBA9414 sp018365895",
                "ani": 78.1314,
                "matched_fragments": 144,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA9414",
                "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_000433535.1",
                "gtdb_species": "s__CAG-317 sp000433535",
                "ani": 77.7007,
                "matched_fragments": 117,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-317",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.49",
                "min_intra_species_ani": "98.19",
                "mean_intra_species_af": "0.84",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCF_012524165.2",
                "gtdb_species": "s__Muricomes sp012524165",
                "ani": 77.5812,
                "matched_fragments": 111,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Muricomes",
                "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_910576335.1",
                "gtdb_species": "s__UBA7109 sp910576335",
                "ani": 77.5066,
                "matched_fragments": 75,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA7109",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.46",
                "min_intra_species_ani": "98.92",
                "mean_intra_species_af": "0.97",
                "min_intra_species_af": "0.94",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_900550865.1",
                "gtdb_species": "s__Dorea_A sp900550865",
                "ani": 77.2022,
                "matched_fragments": 104,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Dorea_A",
                "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_900556835.1",
                "gtdb_species": "s__Faecalimonas sp900556835",
                "ani": 77.0522,
                "matched_fragments": 113,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Faecalimonas",
                "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_904419285.1",
                "gtdb_species": "s__Mediterraneibacter caccogallinarum",
                "ani": 76.885,
                "matched_fragments": 61,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.44",
                "min_intra_species_ani": "97.89",
                "mean_intra_species_af": "0.90",
                "min_intra_species_af": "0.83",
                "num_clustered_genomes": 10,
                "status": "-"
            },
            {
                "accession": "GCA_016295505.1",
                "gtdb_species": "s__Dorea_A sp016295505",
                "ani": 76.8671,
                "matched_fragments": 84,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Dorea_A",
                "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_019120075.1",
                "gtdb_species": "s__Mediterraneibacter excrementigallinarum_A",
                "ani": 76.5558,
                "matched_fragments": 67,
                "total_fragments": 990,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "97.40",
                "min_intra_species_ani": "96.45",
                "mean_intra_species_af": "0.78",
                "min_intra_species_af": "0.77",
                "num_clustered_genomes": 3,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": null,
        "optimum_tmp": null,
        "optimum_ph": null,
        "genome_size": null,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": null,
        "sporulation": null,
        "motility": null,
        "range_salinity": null,
        "facultative_respiration": 0.0,
        "anaerobic_respiration": 1.0,
        "aerobic_respiration": 0.0,
        "mesophilic_range_tmp": null,
        "thermophilic_range_tmp": null,
        "psychrophilic_range_tmp": null,
        "bacillus_cell_shape": null,
        "coccus_cell_shape": null,
        "filament_cell_shape": null,
        "coccobacillus_cell_shape": null,
        "vibrio_cell_shape": null,
        "spiral_cell_shape": null
    },
    "_genome_taxon": [
        "Faecalimonas",
        "umbilicata"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}