{
    "type": "genome",
    "identifier": "GCF_014395645.1",
    "organism": "Phycicoccus endophyticus",
    "title": "Phycicoccus endophyticus",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Kyung Hee University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_014395645.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN15892353",
        "wgs_master": "na",
        "refseq_category": "na",
        "taxid": "1690220",
        "species_taxid": "1690220",
        "organism_name": "Phycicoccus endophyticus",
        "infraspecific_name": "strain=JCM 31784",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2020/09/02",
        "asm_name": "ASM1439564v1",
        "asm_submitter": "Kyung Hee University",
        "gbrs_paired_asm": "GCA_014395645.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/395/645/GCF_014395645.1_ASM1439564v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3239226",
        "genome_size_ungapped": "3239226",
        "gc_percent": "74.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_014395645.1-RS_2024_03_29",
        "annotation_date": "2024-03-29",
        "total_gene_count": "3184",
        "protein_coding_gene_count": "2997",
        "non_coding_gene_count": "53",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2020-09-02",
    "dateModified": "2020-09-02",
    "datePublished": "2020-09-02",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Phycicoccus endophyticus"
        ],
        "sample_taxid": [
            "1690220"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "China"
        ],
        "sample_host_location_id": [],
        "data_size": "0.844 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)": "3239226",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "3239226",
        "N50 (bp)": "3239226",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "73.8",
        "Number of CDSs": "3193",
        "Average Protein Length": "312.3",
        "Coding Ratio (%)": "92.4",
        "Number of rRNAs": "3",
        "Number of tRNAs": "52",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Phycicoccus endophyticus",
                "strain": "strain=CGMCC 4.7300",
                "accession": "GCA_014646175.1",
                "taxid": 1690220,
                "species_taxid": 1690220,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9787,
                "matched_fragments": 1065,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Phycicoccus endophyticus",
                "strain": "strain=IP6SC6",
                "accession": "GCA_011326735.1",
                "taxid": 1690220,
                "species_taxid": 1690220,
                "relation_to_type": "type",
                "validated": true,
                "ani": 99.9757,
                "matched_fragments": 1044,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Phycicoccus mangrovi",
                "strain": "strain=KQZ13P-1",
                "accession": "GCA_018729305.1",
                "taxid": 2840470,
                "species_taxid": 2840470,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.0882,
                "matched_fragments": 798,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Phycicoccus jejuensis",
                "strain": "strain=NRRL B-24460",
                "accession": "GCA_000720925.1",
                "taxid": 367299,
                "species_taxid": 367299,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.0697,
                "matched_fragments": 796,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Phycicoccus flavus",
                "strain": "strain=CMS6Z-2",
                "accession": "GCA_004025965.2",
                "taxid": 2502783,
                "species_taxid": 2502783,
                "relation_to_type": "type",
                "validated": true,
                "ani": 83.6398,
                "matched_fragments": 767,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Phycicoccus duodecadis",
                "strain": "strain=DSM 12806",
                "accession": "GCA_002846495.1",
                "taxid": 173053,
                "species_taxid": 173053,
                "relation_to_type": "type",
                "validated": true,
                "ani": 82.8728,
                "matched_fragments": 727,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Knoellia remsis",
                "strain": "strain=ATCC BAA-1496",
                "accession": "GCA_003002895.1",
                "taxid": 407159,
                "species_taxid": 407159,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.4161,
                "matched_fragments": 566,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Janibacter melonis",
                "strain": "strain=NBRC107855",
                "accession": "GCA_020567375.1",
                "taxid": 262209,
                "species_taxid": 262209,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.9316,
                "matched_fragments": 551,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Janibacter endophyticus",
                "strain": "strain=YIM B02568",
                "accession": "GCA_016888335.1",
                "taxid": 2806261,
                "species_taxid": 2806261,
                "relation_to_type": "type",
                "validated": true,
                "ani": 79.713,
                "matched_fragments": 491,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Arsenicicoccus bolidensis",
                "strain": "strain=DSM 15745",
                "accession": "GCA_000426385.1",
                "taxid": 229480,
                "species_taxid": 229480,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.5707,
                "matched_fragments": 426,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Arsenicicoccus cauae",
                "strain": "strain=MKL-02",
                "accession": "GCA_009707125.1",
                "taxid": 2663847,
                "species_taxid": 2663847,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.5591,
                "matched_fragments": 413,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Arsenicicoccus dermatophilus",
                "strain": "strain=DSM 25571",
                "accession": "GCA_022568795.1",
                "taxid": 1076331,
                "species_taxid": 1076331,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.4383,
                "matched_fragments": 412,
                "total_fragments": 1079,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_011326735.1",
                "gtdb_species": "s__Phycicoccus endophyticus",
                "ani": 99.9757,
                "matched_fragments": 1044,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.99",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 3,
                "status": "conclusive"
            },
            {
                "accession": "GCF_016887965.1",
                "gtdb_species": "s__Phycicoccus sp016887965",
                "ani": 84.2669,
                "matched_fragments": 797,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_013201035.1",
                "gtdb_species": "s__Phycicoccus sp013201035",
                "ani": 84.2015,
                "matched_fragments": 790,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_014763705.1",
                "gtdb_species": "s__Phycicoccus sp014763705",
                "ani": 84.1049,
                "matched_fragments": 602,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_000720925.1",
                "gtdb_species": "s__Phycicoccus jejuensis",
                "ani": 84.0818,
                "matched_fragments": 795,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "96.36",
                "min_intra_species_ani": "95.39",
                "mean_intra_species_af": "0.88",
                "min_intra_species_af": "0.87",
                "num_clustered_genomes": 4,
                "status": "-"
            },
            {
                "accession": "GCF_011383005.1",
                "gtdb_species": "s__Phycicoccus sp011383005",
                "ani": 83.8968,
                "matched_fragments": 820,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_004025965.2",
                "gtdb_species": "s__Phycicoccus flavus",
                "ani": 83.5658,
                "matched_fragments": 774,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_018139485.1",
                "gtdb_species": "s__Phycicoccus sp018139485",
                "ani": 83.1252,
                "matched_fragments": 728,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_002846495.1",
                "gtdb_species": "s__Phycicoccus duodecadis",
                "ani": 82.9387,
                "matched_fragments": 721,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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_001428065.1",
                "gtdb_species": "s__Phycicoccus sp001428065",
                "ani": 82.7151,
                "matched_fragments": 718,
                "total_fragments": 1079,
                "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermatophilaceae;g__Phycicoccus",
                "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": -0.331,
        "cell_length": -0.236,
        "doubling_h": null,
        "growth_tmp": 28.0,
        "optimum_tmp": 29.5,
        "optimum_ph": 7.5,
        "genome_size": 4077600.666,
        "gc_content": null,
        "coding_genes": null,
        "rRNA16S_genes": null,
        "tRNA_genes": null,
        "gram_stain": 1.0,
        "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": 0.333,
        "coccus_cell_shape": 0.666,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Phycicoccus",
        "endophyticus"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}