{
    "type": "genome",
    "identifier": "GCF_000023945.1",
    "organism": "Halorhabdus utahensis DSM 12940",
    "title": "Halorhabdus utahensis DSM 12940",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "US DOE Joint Genome Institute (JGI-PGF)",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000023945.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN00002611",
        "wgs_master": "na",
        "refseq_category": "reference genome",
        "taxid": "519442",
        "species_taxid": "146826",
        "organism_name": "Halorhabdus utahensis DSM 12940",
        "infraspecific_name": "strain=DSM 12940",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Complete Genome",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2009/08/27",
        "asm_name": "ASM2394v1",
        "asm_submitter": "US DOE Joint Genome Institute (JGI-PGF)",
        "gbrs_paired_asm": "GCA_000023945.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/023/945/GCF_000023945.1_ASM2394v1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "archaea",
        "genome_size": "3116795",
        "genome_size_ungapped": "3116795",
        "gc_percent": "63.000000",
        "replicon_count": "1",
        "scaffold_count": "1",
        "contig_count": "1",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000023945.1-RS_2024_10_21",
        "annotation_date": "2024-10-21",
        "total_gene_count": "3060",
        "protein_coding_gene_count": "2978",
        "non_coding_gene_count": "51",
        "pubmed_id": "21304660"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2009-08-27",
    "dateModified": "2009-08-27",
    "datePublished": "2009-08-27",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Halorhabdus utahensis DSM 12940"
        ],
        "sample_taxid": [
            "519442"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "0.863 MB",
        "sample_ph_range": {
            "min": null,
            "max": null
        },
        "sample_temperature_range": {
            "min": null,
            "max": null
        },
        "completeness": 95.83,
        "contamination": 4.17,
        "strain_heterogeneity": 0.0,
        "genome_count": 1
    },
    "data_type": "G",
    "data_source": "RefSeq",
    "_dfast": {
        "Total Sequence Length (bp)": "3116795",
        "Number of Sequences": "1",
        "Longest Sequences (bp)": "3116795",
        "N50 (bp)": "3116795",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "62.9",
        "Number of CDSs": "3006",
        "Average Protein Length": "304.0",
        "Coding Ratio (%)": "88.0",
        "Number of rRNAs": "3",
        "Number of tRNAs": "49",
        "Number of CRISPRs": "1"
    },
    "has_analysis": true,
    "_dfastqc": {
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            {
                "organism_name": "Halorhabdus utahensis",
                "strain": "strain=DSM 12940",
                "accession": "GCA_000023945.1",
                "taxid": 146826,
                "species_taxid": 146826,
                "relation_to_type": "type",
                "validated": true,
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                "matched_fragments": 1038,
                "total_fragments": 1038,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Halorhabdus tiamatea",
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                "species_taxid": 430914,
                "relation_to_type": "type",
                "validated": true,
                "ani": 86.2331,
                "matched_fragments": 670,
                "total_fragments": 1038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halorhabdus tiamatea",
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                "accession": "GCA_000470655.1",
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                "matched_fragments": 704,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halorhabdus amylolytica",
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                "accession": "GCA_004944975.1",
                "taxid": 2559573,
                "species_taxid": 2559573,
                "relation_to_type": "type",
                "validated": true,
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                "total_fragments": 1038,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halorhabdus rudnickae",
                "strain": "",
                "accession": "GCA_900880625.1",
                "taxid": 1775544,
                "species_taxid": 1775544,
                "relation_to_type": "type",
                "validated": true,
                "ani": 81.024,
                "matched_fragments": 528,
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                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Halorhabdus salina",
                "strain": "strain=FL145",
                "accession": "GCA_013839425.1",
                "taxid": 2750670,
                "species_taxid": 2750670,
                "relation_to_type": "type",
                "validated": true,
                "ani": 80.2237,
                "matched_fragments": 474,
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                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
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            "strain_heterogeneity": 0.0
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        "gtdb_result": [
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                "accession": "GCF_000023945.1",
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                "total_fragments": 1038,
                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halorhabdus",
                "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",
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            },
            {
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                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "99.99",
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                "num_clustered_genomes": 2,
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            },
            {
                "accession": "GCF_004944975.1",
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                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halorhabdus",
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                "mean_intra_species_ani": "N/A",
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                "num_clustered_genomes": 1,
                "status": "-"
            },
            {
                "accession": "GCF_900880625.1",
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                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
                "min_intra_species_ani": "N/A",
                "mean_intra_species_af": "N/A",
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                "num_clustered_genomes": 1,
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            },
            {
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                "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halorhabdus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "N/A",
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                "min_intra_species_af": "N/A",
                "num_clustered_genomes": 1,
                "status": "-"
            }
        ]
    },
    "_bac2feature": {
        "phenotypes": null,
        "cell_diameter": -0.302,
        "cell_length": 0.301,
        "doubling_h": null,
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        "optimum_ph": 6.9,
        "genome_size": 3116796.0,
        "gc_content": 62.9,
        "coding_genes": 2936.667,
        "rRNA16S_genes": 1.0,
        "tRNA_genes": 44.0,
        "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": 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": [
        "Halorhabdus",
        "utahensis",
        "DSM",
        "12940"
    ],
    "quality": 5,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}