{ "type": "genome", "identifier": "GCF_000416965.1", "organism": "Exiguobacterium chiriqhucha RW-2", "title": "Exiguobacterium chiriqhucha RW-2", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of British Columbia", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000416965.1", "bioproject": "PRJNA224116", "biosample": "SAMN02471612", "wgs_master": "ATCL00000000.1", "refseq_category": "reference genome", "taxid": "1345023", "species_taxid": "1385984", "organism_name": "Exiguobacterium chiriqhucha RW-2", "infraspecific_name": "strain=RW-2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/01", "asm_name": "23.K55", "asm_submitter": "University of British Columbia", "gbrs_paired_asm": "GCA_000416965.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/416/965/GCF_000416965.1_23.K55", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3019504", "genome_size_ungapped": "3019504", "gc_percent": "52.000000", "replicon_count": "0", "scaffold_count": "23", "contig_count": "23", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000416965.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3115", "protein_coding_gene_count": "3040", "non_coding_gene_count": "61", "pubmed_id": "23929485" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-01", "dateModified": "2013-07-01", "datePublished": "2013-07-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Exiguobacterium chiriqhucha RW-2" ], "sample_taxid": [ "1345023" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: BC" ], "sample_host_location_id": [], "data_size": "0.855 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)": "3019504", "Number of Sequences": "23", "Longest Sequences (bp)": "947149", "N50 (bp)": "705844", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.0", "Number of CDSs": "3056", "Average Protein Length": "298.6", "Coding Ratio (%)": "90.7", "Number of rRNAs": "4", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Exiguobacterium chiriqhucha", "strain": "strain=RW-2", "accession": "GCA_000416965.1", "taxid": 1385984, "species_taxid": 1385984, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 995, "total_fragments": 997, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Exiguobacterium alkaliphilum", "strain": "strain=12/1", "accession": "GCA_000714435.1", "taxid": 1428684, "species_taxid": 1428684, "relation_to_type": "type", "validated": true, "ani": 84.5074, "matched_fragments": 753, "total_fragments": 997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Exiguobacterium aurantiacum", "strain": "strain=DSM 6208", "accession": "GCA_000702585.1", "taxid": 33987, "species_taxid": 33987, "relation_to_type": "type", "validated": true, "ani": 84.4813, "matched_fragments": 773, "total_fragments": 997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Exiguobacterium aurantiacum", "strain": "strain=NCTC13163", "accession": "GCA_900450545.1", "taxid": 33987, "species_taxid": 33987, "relation_to_type": "type", "validated": true, "ani": 84.4251, "matched_fragments": 778, "total_fragments": 997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Exiguobacterium himgiriensis", "strain": "strain=K22_26", "accession": "GCA_025234715.1", "taxid": 384621, "species_taxid": 384621, "relation_to_type": "type", "validated": true, "ani": 83.6883, "matched_fragments": 687, "total_fragments": 997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Exiguobacterium aestuarii", "strain": "strain=TF_16", "accession": "GCA_025234735.1", "taxid": 273527, "species_taxid": 273527, "relation_to_type": "type", "validated": true, "ani": 81.2324, "matched_fragments": 529, "total_fragments": 997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Exiguobacterium profundum", "strain": "strain=10C", "accession": "GCA_025234635.1", "taxid": 307643, "species_taxid": 307643, "relation_to_type": "type", "validated": true, "ani": 81.0861, "matched_fragments": 530, "total_fragments": 997, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Exiguobacterium 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"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_005960665.1", "gtdb_species": "s__Exiguobacterium mexicanum", "ani": 91.2666, "matched_fragments": 794, "total_fragments": 997, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Exiguobacterales;f__Exiguobacteraceae;g__Exiguobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.16", "min_intra_species_ani": "96.68", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 17, "status": "-" }, { "accession": "GCF_003467445.1", "gtdb_species": "s__Exiguobacterium sp003467445", "ani": 91.2281, "matched_fragments": 818, "total_fragments": 997, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Exiguobacterales;f__Exiguobacteraceae;g__Exiguobacterium", "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_003331145.1", "gtdb_species": "s__Exiguobacterium sp003331145", "ani": 90.1766, "matched_fragments": 814, "total_fragments": 997, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Exiguobacterales;f__Exiguobacteraceae;g__Exiguobacterium", "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_004336985.1", "gtdb_species": "s__Exiguobacterium sp004336985", "ani": 89.8615, "matched_fragments": 859, "total_fragments": 997, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Exiguobacterales;f__Exiguobacteraceae;g__Exiguobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.45", "min_intra_species_ani": "98.45", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.092, "cell_length": 0.326, "doubling_h": null, "growth_tmp": 28.285, "optimum_tmp": 34.2, "optimum_ph": 7.625, "genome_size": 3136503.296, "gc_content": 45.862, "coding_genes": 2872.166, "rRNA16S_genes": 9.0, "tRNA_genes": 68.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.857, "range_salinity": 0.0, "facultative_respiration": 0.285, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.714, "mesophilic_range_tmp": 0.5, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.5, "bacillus_cell_shape": 0.857, "coccus_cell_shape": 0.142, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Exiguobacterium", "chiriqhucha", "RW-2" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }