{ "type": "genome", "identifier": "GCF_018332495.1", "organism": "Bacillus paramobilis", "title": "Bacillus paramobilis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Department of Microbiology, Juntendo University School of Medicine", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018332495.1", "bioproject": "PRJNA224116", "biosample": "SAMD00286806", "wgs_master": "BOQC00000000.1", "refseq_category": "na", "taxid": "2817477", "species_taxid": "2817477", "organism_name": "Bacillus paramobilis", "infraspecific_name": "strain=BML-BC017", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/14", "asm_name": "ASM1833249v1", "asm_submitter": "Department of Microbiology, Juntendo University School of Medicine", "gbrs_paired_asm": "GCA_018332495.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/332/495/GCF_018332495.1_ASM1833249v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5862198", "genome_size_ungapped": "5862198", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "993", "contig_count": "993", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018332495.1-RS_2024_08_02", "annotation_date": "2024-08-02", "total_gene_count": "6419", "protein_coding_gene_count": "5942", "non_coding_gene_count": "106", "pubmed_id": "34494947" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-14", "dateModified": "2021-03-14", "datePublished": "2021-03-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Bacillus paramobilis" ], "sample_taxid": [ "2817477" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Saitama, Kawagoe" ], "sample_host_location_id": [], "data_size": "1.664 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 9.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5861356", "Number of Sequences": "988", "Longest Sequences (bp)": "79375", "N50 (bp)": "15777", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.2", "Number of CDSs": "5641", "Average Protein Length": "267.9", "Coding Ratio (%)": "77.3", "Number of rRNAs": "8", "Number of tRNAs": "89", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bacillus sanguinis", "strain": "strain=BML-BC004", "accession": "GCA_018332475.1", "taxid": 2817476, "species_taxid": 2817476, "relation_to_type": "type", "validated": true, "ani": 94.5627, "matched_fragments": 1234, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus pacificus", "strain": "strain=EB422", "accession": "GCA_001884025.1", "taxid": 2026187, "species_taxid": 2026187, "relation_to_type": "type", "validated": true, "ani": 93.5387, "matched_fragments": 1289, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus tropicus", "strain": "strain=N24", "accession": "GCA_001884035.1", "taxid": 2026188, "species_taxid": 2026188, "relation_to_type": "type", "validated": true, "ani": 93.4553, "matched_fragments": 1266, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus paranthracis", "strain": "strain=Mn5", "accession": "GCA_001883995.1", "taxid": 2026186, "species_taxid": 2026186, "relation_to_type": "type", "validated": true, "ani": 93.1929, "matched_fragments": 1236, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus anthracis", "strain": "strain=Vollum", "accession": "GCA_022221345.1", "taxid": 1392, "species_taxid": 1392, "relation_to_type": "type", "validated": true, "ani": 92.9927, "matched_fragments": 1290, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus anthracis", "strain": "strain=Vollum", "accession": "GCA_000167275.1", "taxid": 1392, "species_taxid": 1392, "relation_to_type": "type", "validated": true, "ani": 92.9845, "matched_fragments": 1273, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus luti", "strain": "strain=TD41", "accession": "GCA_001884105.1", "taxid": 2026191, "species_taxid": 2026191, "relation_to_type": "type", "validated": true, "ani": 91.5888, "matched_fragments": 1204, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus thuringiensis", "strain": "strain=ATCC 10792", "accession": "GCA_002119445.1", "taxid": 1428, "species_taxid": 1428, "relation_to_type": "suspected-type", "validated": true, "ani": 91.3969, "matched_fragments": 1279, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus toyonensis", "strain": "strain=BCT-7112", "accession": "GCA_000496285.1", "taxid": 155322, "species_taxid": 155322, "relation_to_type": "type", "validated": true, "ani": 91.2177, "matched_fragments": 1216, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus nitratireducens", "strain": "strain=4049", "accession": "GCA_001884135.1", "taxid": 2026193, "species_taxid": 2026193, "relation_to_type": "type", "validated": true, "ani": 90.9734, "matched_fragments": 1226, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus proteolyticus", "strain": "strain=TD42", "accession": "GCA_001884065.1", "taxid": 2026192, "species_taxid": 2026192, "relation_to_type": "type", "validated": true, "ani": 90.3969, "matched_fragments": 1213, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus mycoides", "strain": "strain=ATCC 6462", "accession": "GCA_000832605.1", "taxid": 1405, "species_taxid": 1405, "relation_to_type": "type", "validated": true, "ani": 90.3431, "matched_fragments": 1237, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus mycoides", "strain": "strain=DSM 2048", "accession": "GCA_000003925.1", "taxid": 1405, "species_taxid": 1405, "relation_to_type": "type", "validated": true, "ani": 90.2893, "matched_fragments": 1214, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus mycoides", "strain": "strain=DSM 2048", "accession": "GCA_022630575.1", "taxid": 1405, "species_taxid": 1405, "relation_to_type": "type", "validated": true, "ani": 90.1973, "matched_fragments": 1231, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sutcliffiella halmapala", "strain": "strain=DSM 8723", "accession": "GCA_002019665.1", "taxid": 79882, "species_taxid": 79882, "relation_to_type": "type", "validated": true, "ani": 77.4051, "matched_fragments": 96, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lederbergia wuyishanensis", "strain": "strain=CGMCC 1.12709", "accession": "GCA_022900255.1", "taxid": 1347903, "species_taxid": 1347903, "relation_to_type": "type", "validated": true, "ani": 76.5428, "matched_fragments": 55, "total_fragments": 1571, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 9.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001884045.1", "gtdb_species": "s__Bacillus_A mobilis", "ani": 95.9265, "matched_fragments": 1319, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.91", "min_intra_species_ani": "95.80", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.81", "num_clustered_genomes": 33, "status": "inconclusive" }, { "accession": "GCF_001583695.1", "gtdb_species": "s__Bacillus_A wiedmannii", "ani": 95.0635, "matched_fragments": 1255, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "95.09", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 225, "status": "inconclusive" }, { "accession": "GCF_008923725.1", "gtdb_species": "s__Bacillus_A sp008923725", "ani": 94.7945, "matched_fragments": 1274, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900094905.1", "gtdb_species": "s__Bacillus_A cereus_AG", "ani": 94.7251, "matched_fragments": 1258, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.51", "min_intra_species_ani": "99.13", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_018332475.1", "gtdb_species": "s__Bacillus_A sp018332475", "ani": 94.5627, "matched_fragments": 1234, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.31", "min_intra_species_ani": "95.31", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002571225.1", "gtdb_species": "s__Bacillus_A sp002571225", "ani": 94.0401, "matched_fragments": 1284, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "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_001884185.1", "gtdb_species": "s__Bacillus_A albus", "ani": 93.9958, "matched_fragments": 1280, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.54", "min_intra_species_ani": "95.46", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 25, "status": "-" }, { "accession": "GCF_001455345.1", "gtdb_species": "s__Bacillus_A thuringiensis_N", "ani": 93.6972, "matched_fragments": 1287, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.23", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCF_001884035.1", "gtdb_species": "s__Bacillus_A tropicus", "ani": 93.4553, "matched_fragments": 1266, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.3658, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "95.65", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 109, "status": "-" }, { "accession": "GCF_006494425.1", "gtdb_species": "s__Bacillus_A sp006494425", "ani": 93.3461, "matched_fragments": 1284, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "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_002746455.1", "gtdb_species": "s__Bacillus_A fungorum", "ani": 93.2619, "matched_fragments": 1242, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.51", "min_intra_species_ani": "97.51", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001884105.1", "gtdb_species": "s__Bacillus_A luti", "ani": 91.5888, "matched_fragments": 1204, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.24", "min_intra_species_ani": "95.75", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_002584985.1", "gtdb_species": "s__Bacillus_A sp002584985", "ani": 90.8422, "matched_fragments": 1158, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.41", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_001884065.1", "gtdb_species": "s__Bacillus_A proteolyticus", "ani": 90.3839, "matched_fragments": 1214, "total_fragments": 1571, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.1182, "mean_intra_species_ani": "98.61", "min_intra_species_ani": "98.37", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.176, "cell_length": 0.387, "doubling_h": -0.134, "growth_tmp": 31.412, "optimum_tmp": 33.64, "optimum_ph": 7.746, "genome_size": 4544138.117, "gc_content": 40.577, "coding_genes": 4334.002, "rRNA16S_genes": 9.859, "tRNA_genes": 88.223, "gram_stain": 0.993, "sporulation": 0.975, "motility": 0.841, "range_salinity": 0.6, "facultative_respiration": 0.16, "anaerobic_respiration": 0.011, "aerobic_respiration": 0.827, "mesophilic_range_tmp": 0.928, "thermophilic_range_tmp": 0.053, "psychrophilic_range_tmp": 0.017, "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": [ "Bacillus", "paramobilis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }