{ "type": "genome", "identifier": "GCF_003315295.1", "organism": "Paraliobacillus ryukyuensis", "title": "Paraliobacillus ryukyuensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003315295.1", "bioproject": "PRJNA224116", "biosample": "SAMN09064081", "wgs_master": "QNRI00000000.1", "refseq_category": "reference genome", "taxid": "200904", "species_taxid": "200904", "organism_name": "Paraliobacillus ryukyuensis", "infraspecific_name": "strain=DSM 15140", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/07/12", "asm_name": "ASM331529v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003315295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/315/295/GCF_003315295.1_ASM331529v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3095919", "genome_size_ungapped": "3095613", "gc_percent": "36.000000", "replicon_count": "0", "scaffold_count": "31", "contig_count": "31", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003315295.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "3171", "protein_coding_gene_count": "3050", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-07-12", "dateModified": "2018-07-12", "datePublished": "2018-07-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Paraliobacillus ryukyuensis" ], "sample_taxid": [ "200904" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "0.875 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3095919", "Number of Sequences": "31", "Longest Sequences (bp)": "632607", "N50 (bp)": "207957", "Gap Ratio (%)": "0.009884", "GCcontent (%)": "36.2", "Number of CDSs": "3115", "Average Protein Length": "281.0", "Coding Ratio (%)": "84.8", "Number of rRNAs": "7", "Number of tRNAs": "62", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paraliobacillus ryukyuensis", "strain": "strain=DSM 15140", "accession": "GCA_003315295.1", "taxid": 200904, "species_taxid": 200904, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1015, 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"status": "below_threshold" }, { "organism_name": "Amphibacillus cookii", "strain": "strain=DSM 23721", "accession": "GCA_016908375.1", "taxid": 767787, "species_taxid": 767787, "relation_to_type": "type", "validated": true, "ani": 77.8233, "matched_fragments": 110, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraliobacillus quinghaiensis", "strain": "strain=CGMCC 1.6333", "accession": "GCA_014645115.1", "taxid": 470815, "species_taxid": 470815, "relation_to_type": "type", "validated": true, "ani": 77.7845, "matched_fragments": 197, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraliobacillus quinghaiensis", "strain": "strain=YIM-C158", "accession": "GCA_003426025.1", "taxid": 470815, "species_taxid": 470815, "relation_to_type": "type", "validated": true, "ani": 77.77, "matched_fragments": 194, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibacillus kalidii", "strain": "strain=HU2P27", "accession": "GCA_014280935.1", "taxid": 2762597, "species_taxid": 2762597, "relation_to_type": "type", "validated": true, "ani": 77.7643, "matched_fragments": 111, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraliobacillus zengyii", "strain": "strain=X-1125", "accession": "GCA_003268595.1", "taxid": 2213194, "species_taxid": 2213194, "relation_to_type": "type", "validated": true, "ani": 77.5946, "matched_fragments": 213, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amphibacillus jilinensis", "strain": "strain=Y1", "accession": "GCA_000306965.1", "taxid": 1216008, "species_taxid": 1216008, "relation_to_type": "type", "validated": true, "ani": 77.5769, "matched_fragments": 111, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibacillus sediminis", "strain": "strain=BH258", "accession": "GCA_005870085.1", "taxid": 2574734, "species_taxid": 2574734, "relation_to_type": "type", "validated": true, "ani": 77.1773, "matched_fragments": 127, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraliobacillus sediminis", "strain": "strain=126C4", "accession": "GCA_003426055.1", "taxid": 1885916, "species_taxid": 1885916, "relation_to_type": "type", "validated": true, "ani": 77.1674, "matched_fragments": 151, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibacillus albus", "strain": "strain=DSM 23711", "accession": "GCA_016908325.1", "taxid": 1168171, "species_taxid": 1168171, "relation_to_type": "type", "validated": true, "ani": 77.132, "matched_fragments": 99, "total_fragments": 1017, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibacillus saliphilus", "strain": "strain=KHM2", "accession": "GCA_020404745.1", "taxid": 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Paraliobacillus", "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_014083865.1", "gtdb_species": "s__Paraliobacillus salinarum", "ani": 78.2219, "matched_fragments": 270, "total_fragments": 1017, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Paraliobacillus", "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_900110345.1", "gtdb_species": "s__Amphibacillus_D marinus", "ani": 78.161, "matched_fragments": 73, "total_fragments": 1017, "gtdb_taxonomy": 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null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 1.0, "motility": 1.0, "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": 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": [ "Paraliobacillus", "ryukyuensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }