{
    "type": "genome",
    "identifier": "GCF_000334155.1",
    "organism": "Halalkalibacterium ligniniphilum",
    "title": "Halalkalibacterium ligniniphilum",
    "description": "na",
    "data type": "Genome sequencing and assembly",
    "organization": "Jiangsu University",
    "publication": [
        {}
    ],
    "properties": {
        "assembly_accession": "GCF_000334155.1",
        "bioproject": "PRJNA224116",
        "biosample": "SAMN02470111",
        "wgs_master": "ANNK00000000.1",
        "refseq_category": "reference genome",
        "taxid": "1134413",
        "species_taxid": "1134413",
        "organism_name": "Halalkalibacterium ligniniphilum",
        "infraspecific_name": "strain=L1",
        "isolate": "na",
        "version_status": "latest",
        "assembly_level": "Contig",
        "release_type": "Major",
        "genome_rep": "Full",
        "seq_rel_date": "2013/01/28",
        "asm_name": "L1",
        "asm_submitter": "Jiangsu University",
        "gbrs_paired_asm": "GCA_000334155.1",
        "paired_asm_comp": "identical",
        "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/334/155/GCF_000334155.1_L1",
        "excluded_from_refseq": "na",
        "relation_to_type_material": "assembly from type material",
        "asm_not_live_date": "na        ",
        "assembly_type": "haploid",
        "group": "bacteria",
        "genome_size": "3856255",
        "genome_size_ungapped": "3856255",
        "gc_percent": "41.000000",
        "replicon_count": "0",
        "scaffold_count": "196",
        "contig_count": "196",
        "annotation_provider": "NCBI RefSeq",
        "annotation_name": "GCF_000334155.1-RS_2024_10_21",
        "annotation_date": "2024-10-21",
        "total_gene_count": "4020",
        "protein_coding_gene_count": "3806",
        "non_coding_gene_count": "103",
        "pubmed_id": "23516185"
    },
    "dbXrefs": [],
    "distribution": null,
    "Download": null,
    "status": "public",
    "visibility": null,
    "dateCreated": "2013-01-28",
    "dateModified": "2013-01-28",
    "datePublished": "2013-01-28",
    "_annotation": {
        "sample_count": 1,
        "sample_organism": [
            "Halalkalibacterium ligniniphilum"
        ],
        "sample_taxid": [
            "1134413"
        ],
        "sample_host_organism": [],
        "sample_host_organism_id": [],
        "sample_host_disease": [],
        "sample_host_disease_id": [],
        "sample_host_location": [],
        "sample_host_location_id": [],
        "data_size": "1.075 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)": "3856255",
        "Number of Sequences": "196",
        "Longest Sequences (bp)": "132917",
        "N50 (bp)": "40610",
        "Gap Ratio (%)": "0.000000",
        "GCcontent (%)": "40.8",
        "Number of CDSs": "3790",
        "Average Protein Length": "269.8",
        "Coding Ratio (%)": "79.5",
        "Number of rRNAs": "5",
        "Number of tRNAs": "88",
        "Number of CRISPRs": "0"
    },
    "has_analysis": true,
    "_dfastqc": {
        "tc_result": [
            {
                "organism_name": "Halalkalibacterium ligniniphilum",
                "strain": "strain=L1",
                "accession": "GCA_000334155.1",
                "taxid": 1134413,
                "species_taxid": 1134413,
                "relation_to_type": "type",
                "validated": true,
                "ani": 100.0,
                "matched_fragments": 1178,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "conclusive"
            },
            {
                "organism_name": "Alkalihalobacillus nanhaiisediminis",
                "strain": "strain=CGMCC 1.10116",
                "accession": "GCA_007830185.1",
                "taxid": 688079,
                "species_taxid": 688079,
                "relation_to_type": "type",
                "validated": true,
                "ani": 78.182,
                "matched_fragments": 157,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus wakoensis",
                "strain": "strain=JCM 9140",
                "accession": "GCA_000513095.1",
                "taxid": 127891,
                "species_taxid": 127891,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3474,
                "matched_fragments": 132,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus wakoensis",
                "strain": "strain=JCM 9140",
                "accession": "GCA_001315045.1",
                "taxid": 127891,
                "species_taxid": 127891,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3227,
                "matched_fragments": 134,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus krulwichiae",
                "strain": "strain=AM31D",
                "accession": "GCA_002109385.1",
                "taxid": 199441,
                "species_taxid": 199441,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.3118,
                "matched_fragments": 130,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus hemicellulosilyticus",
                "strain": "strain=JCM 9152",
                "accession": "GCA_001315065.1",
                "taxid": 127886,
                "species_taxid": 127886,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1677,
                "matched_fragments": 82,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus trypoxylicola",
                "strain": "strain=KCTC 13244",
                "accession": "GCA_001590785.1",
                "taxid": 519424,
                "species_taxid": 519424,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1574,
                "matched_fragments": 95,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus krulwichiae",
                "strain": "strain=NBRC 102362",
                "accession": "GCA_001591945.1",
                "taxid": 199441,
                "species_taxid": 199441,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.1101,
                "matched_fragments": 130,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalophilus marmarensis",
                "strain": "strain=DSM 21297",
                "accession": "GCA_000474275.2",
                "taxid": 521377,
                "species_taxid": 521377,
                "relation_to_type": "type",
                "validated": true,
                "ani": 77.0892,
                "matched_fragments": 125,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            },
            {
                "organism_name": "Alkalihalobacillus trypoxylicola",
                "strain": "strain=NBRC 102646",
                "accession": "GCA_001592025.1",
                "taxid": 519424,
                "species_taxid": 519424,
                "relation_to_type": "type",
                "validated": true,
                "ani": 76.7576,
                "matched_fragments": 89,
                "total_fragments": 1186,
                "ani_threshold": 95,
                "status": "below_threshold"
            }
        ],
        "cc_result": {
            "completeness": 100.0,
            "contamination": 0.0,
            "strain_heterogeneity": 0.0
        },
        "gtdb_result": [
            {
                "accession": "GCF_000334155.1",
                "gtdb_species": "s__Bacillus_AN ligniniphilus",
                "ani": 100.0,
                "matched_fragments": 1178,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_AN",
                "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_007830185.1",
                "gtdb_species": "s__Bacillus_L nanhaiisediminis",
                "ani": 78.174,
                "matched_fragments": 159,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L",
                "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_002156385.1",
                "gtdb_species": "s__45385 sp002156385",
                "ani": 77.5041,
                "matched_fragments": 144,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__45385",
                "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_002797395.1",
                "gtdb_species": "s__45385 sp002797395",
                "ani": 77.4051,
                "matched_fragments": 112,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__45385",
                "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_000005825.2",
                "gtdb_species": "s__Bacillus_S pseudofirmus",
                "ani": 77.3685,
                "matched_fragments": 131,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S",
                "ani_circumscription_radius": 95.9507,
                "mean_intra_species_ani": "97.22",
                "min_intra_species_ani": "97.22",
                "mean_intra_species_af": "0.89",
                "min_intra_species_af": "0.89",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000513095.1",
                "gtdb_species": "s__Bacillus_L wakoensis",
                "ani": 77.3433,
                "matched_fragments": 133,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "0.99",
                "min_intra_species_af": "0.99",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_002109385.1",
                "gtdb_species": "s__Bacillus_L krulwichiae",
                "ani": 77.327,
                "matched_fragments": 127,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L",
                "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": 2,
                "status": "-"
            },
            {
                "accession": "GCF_000513115.1",
                "gtdb_species": "s__Bacillus_L hemicellulosilyticus",
                "ani": 77.1383,
                "matched_fragments": 83,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_L",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "100.00",
                "min_intra_species_ani": "100.00",
                "mean_intra_species_af": "1.00",
                "min_intra_species_af": "1.00",
                "num_clustered_genomes": 2,
                "status": "-"
            },
            {
                "accession": "GCF_002797325.1",
                "gtdb_species": "s__Bacillus_S sp002797325",
                "ani": 77.1377,
                "matched_fragments": 113,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S",
                "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_001590785.1",
                "gtdb_species": "s__Alkalihalobacillus trypoxylicola",
                "ani": 77.131,
                "matched_fragments": 97,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Alkalihalobacillus",
                "ani_circumscription_radius": 95.0,
                "mean_intra_species_ani": "98.48",
                "min_intra_species_ani": "96.97",
                "mean_intra_species_af": "0.95",
                "min_intra_species_af": "0.90",
                "num_clustered_genomes": 3,
                "status": "-"
            },
            {
                "accession": "GCA_001038565.1",
                "gtdb_species": "s__Alkalihalobacillus pseudalcaliphilus",
                "ani": 77.0897,
                "matched_fragments": 84,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Alkalihalobacillus",
                "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_000474275.2",
                "gtdb_species": "s__Bacillus_S marmarensis",
                "ani": 77.0892,
                "matched_fragments": 125,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_H;f__Bacillaceae_D;g__Bacillus_S",
                "ani_circumscription_radius": 95.9507,
                "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_003318295.1",
                "gtdb_species": "s__Maribacillus taeanensis",
                "ani": 76.7251,
                "matched_fragments": 59,
                "total_fragments": 1186,
                "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_G;f__UBA6769;g__Maribacillus",
                "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": 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": null,
        "anaerobic_respiration": null,
        "aerobic_respiration": null,
        "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": [
        "Halalkalibacterium",
        "ligniniphilum"
    ],
    "quality": 4,
    "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f"
}