{
    "type": "genome",
    "identifier": "GCF_003697815.1",
    "organism": "Halalkalicoccus subterraneus",
    "title": "Halalkalicoccus subterraneus",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Anhui University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_003697815.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN10255636",
        "wgs_master": "RDQG00000000.1",
        "refseq_category": "reference genome",
        "taxid": "2675002",
        "species_taxid": "2675002",
        "organism_name": "Halalkalicoccus subterraneus",
        "infraspecific_name": "strain=GSM28",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Scaffold",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2018/10/30",
        "asm_name": "ASM369781v1",
        "asm_submitter": "Anhui University",
        "gbrs_paired_asm": "GCA_003697815.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/697/815/GCF_003697815.1_ASM369781v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "archaea",
        "genome_size": "3610033",
        "genome_size_ungapped": "3610003",
        "gc_percent": "62.000000",
        "replicon_count": "0",
        "scaffold_count": "101",
        "contig_count": "101",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_003697815.1-RS_2024_10_23",
        "annotation_date": "2024-10-23",
        "total_gene_count": "3914",
        "protein_coding_gene_count": "3744",
        "non_coding_gene_count": "61",
        "pubmed_id": "na"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2018-10-30",
    "dateModified": "2018-10-30",
    "datePublished": "2018-10-30",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Halalkalicoccus subterraneus"
        ],
        "sample_taxid": [
            "2675002"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [
            "China: Yunnan"
        ],
        "sample_host_location_id": [],
        "data_size": "1.010 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 93.75,
        "contamination": 4.55,
        "strain_heterogeneity": 50.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "3610033",
        "Number of Sequences": "101",
        "Longest Sequences (bp)": "289271",
        "N50 (bp)": "59666",
        "Gap Ratio (%)": "0.000831",
        "GCcontent (%)": "61.8",
        "Number of CDSs": "3727",
        "Average Protein Length": "267.0",
        "Coding Ratio (%)": "82.7",
        "Number of rRNAs": "1",
        "Number of tRNAs": "54",
        "Number of CRISPRs": "3"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Halalkalicoccus subterraneus",
                "strain": "strain=GSM28",
                "accession": "GCA_003697815.1",
                "taxid": 2675002,
                "species_taxid": 2675002,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1145,
                "total_fragments": 1150,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Halalkalicoccus paucihalophilus",
                "strain": "strain=DSM 24557",
                "accession": "GCA_001593955.1",
                "taxid": 1008153,
                "species_taxid": 1008153,
                "relation_to_type": "type",
                "validated": true,
                "ani": 85.2321,
                "matched_fragments": 792,
                "total_fragments": 1150,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halalkalicoccus jeotgali",
                "strain": "strain=B3",
                "accession": "GCA_000196895.1",
                "taxid": 413810,
                "species_taxid": 413810,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.8719,
                "matched_fragments": 767,
                "total_fragments": 1150,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halalkalicoccus jeotgali",
                "strain": "strain=B3",
                "accession": "GCA_000337255.1",
                "taxid": 413810,
                "species_taxid": 413810,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.869,
                "matched_fragments": 750,
                "total_fragments": 1150,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halalkalicoccus jeotgali",
                "strain": "strain=B3",
                "accession": "GCA_000485535.1",
                "taxid": 413810,
                "species_taxid": 413810,
                "relation_to_type": "type",
                "validated": true,
                "ani": 84.8433,
                "matched_fragments": 757,
                "total_fragments": 1150,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 93.75,
            "contamination": 4.55,
            "strain_heterogeneity": 50.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_003697815.1",
                "gtdb_species": "s__Halalkalicoccus subterraneus",
                "ani": 100.0,
                "matched_fragments": 1145,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halalkalicoccaceae;g__Halalkalicoccus",
                "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_001593955.1",
                "gtdb_species": "s__Halalkalicoccus paucihalophilus",
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                "matched_fragments": 793,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halalkalicoccaceae;g__Halalkalicoccus",
                "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_000196895.1",
                "gtdb_species": "s__Halalkalicoccus jeotgali",
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                "matched_fragments": 767,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halalkalicoccaceae;g__Halalkalicoccus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
                "min_intra_species_ani": "99.98",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_007128515.1",
                "gtdb_species": "s__SKXI01 sp007128515",
                "ani": 78.2142,
                "matched_fragments": 232,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halalkalicoccaceae;g__SKXI01",
                "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_007129135.1",
                "gtdb_species": "s__SKXI01 sp007129135",
                "ani": 77.9594,
                "matched_fragments": 301,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halalkalicoccaceae;g__SKXI01",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.24",
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                "mean_intra_species_af": "0.85",
                "min_intra_species_af": "0.85",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_002494345.1",
                "gtdb_species": "s__Natrinema ejinorense",
                "ani": 77.3228,
                "matched_fragments": 292,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "95.42",
                "min_intra_species_ani": "95.42",
                "mean_intra_species_af": "0.91",
                "min_intra_species_af": "0.91",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_900103505.1",
                "gtdb_species": "s__Haloarchaeobius iranensis",
                "ani": 77.1375,
                "matched_fragments": 278,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Haloarchaeobius",
                "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_000337175.1",
                "gtdb_species": "s__Natrinema gari",
                "ani": 77.1274,
                "matched_fragments": 253,
                "total_fragments": 1150,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.50",
                "min_intra_species_ani": "98.45",
                "mean_intra_species_af": "0.93",
                "min_intra_species_af": "0.92",
                "num_clustered_genomes": 3,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": null,
        "cell_length": null,
        "doubling_h": null,
        "growth_tmp": 37.0,
        "optimum_tmp": 35.5,
        "optimum_ph": 7.75,
        "genome_size": 3838254.5,
        "gc_content": 57.075,
        "coding_genes": 3729.333,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 48.0,
        "gram_stain": 0.0,
        "sporulation": 0.0,
        "motility": 0.0,
        "range_salinity": 1.0,
        "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": 0.0,
        "coccus_cell_shape": 1.0,
        "filament_cell_shape": 0.0,
        "coccobacillus_cell_shape": 0.0,
        "vibrio_cell_shape": 0.0,
        "spiral_cell_shape": 0.0
    },
    "_genome_taxon": [
        "Halalkalicoccus",
        "subterraneus"
    ],
    "quality": 3,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}