{ "type": "genome", "identifier": "GCF_001894945.1", "organism": "Rhodococcus ruber NBRC 15591", "title": "Rhodococcus ruber NBRC 15591", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001894945.1", "bioproject": "PRJNA224116", "biosample": "SAMD00046777", "wgs_master": "BCXE00000000.1", "refseq_category": "na", "taxid": "1219025", "species_taxid": "1830", "organism_name": "Rhodococcus ruber NBRC 15591", "infraspecific_name": "strain=NBRC 15591", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/12/05", "asm_name": "ASM189494v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_001894945.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/894/945/GCF_001894945.1_ASM189494v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5333393", "genome_size_ungapped": "5333393", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "56", "contig_count": "56", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001894945.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "4940", "protein_coding_gene_count": "4834", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-12-05", "dateModified": "2016-12-05", "datePublished": "2016-12-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodococcus ruber NBRC 15591" ], "sample_taxid": [ "1219025" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.430 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)": "5333393", "Number of Sequences": "56", "Longest Sequences (bp)": "621939", "N50 (bp)": "174027", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.7", "Number of CDSs": "4875", "Average Protein Length": "329.3", "Coding Ratio (%)": "90.3", "Number of rRNAs": "4", "Number of tRNAs": "59", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhodococcus ruber", "strain": "strain=NBRC 15591", "accession": "GCA_001894945.1", "taxid": 1830, "species_taxid": 1830, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1750, "total_fragments": 1753, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rhodococcus ruber", "strain": "strain=DSM 43338", "accession": "GCA_001646835.1", "taxid": 1830, "species_taxid": 1830, "relation_to_type": "type", "validated": true, "ani": 99.9385, "matched_fragments": 1652, "total_fragments": 1753, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rhodococcus aetherivorans", "strain": "strain=JCM 14343", "accession": "GCA_009176285.1", "taxid": 191292, "species_taxid": 191292, "relation_to_type": "type", "validated": true, "ani": 92.0019, "matched_fragments": 1518, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus aetherivorans", "strain": "strain=DSM 44752", "accession": "GCA_011058165.1", "taxid": 191292, "species_taxid": 191292, "relation_to_type": "type", "validated": true, "ani": 91.9537, "matched_fragments": 1475, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus zopfii", "strain": "strain=NBRC 100606", "accession": "GCA_001895025.1", "taxid": 43772, "species_taxid": 43772, "relation_to_type": "type", "validated": true, "ani": 82.0502, "matched_fragments": 1043, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus phenolicus", "strain": "strain=DSM 44812", "accession": "GCA_001646785.1", "taxid": 263849, "species_taxid": 263849, "relation_to_type": "type", "validated": true, "ani": 81.7446, "matched_fragments": 991, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus rhodochrous", "strain": "strain=DSM 43241", "accession": "GCA_001646825.1", "taxid": 1829, "species_taxid": 1829, "relation_to_type": "suspected-type", "validated": true, "ani": 81.1611, "matched_fragments": 942, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus yananensis", "strain": "strain=FBM22-1", "accession": "GCA_020515525.1", "taxid": 2879464, "species_taxid": 2879464, "relation_to_type": "type", "validated": true, "ani": 80.7107, "matched_fragments": 799, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia amamiensis", "strain": "strain=NBRC 102102", "accession": "GCA_001612745.1", "taxid": 404578, "species_taxid": 404578, "relation_to_type": "type", "validated": true, "ani": 78.467, "matched_fragments": 576, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium insubricum", "strain": "strain=JCM 16366", "accession": "GCA_010731615.1", "taxid": 444597, "species_taxid": 444597, "relation_to_type": "type", "validated": true, "ani": 78.1297, "matched_fragments": 433, "total_fragments": 1753, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { 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"filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Rhodococcus", "ruber", "NBRC", "15591" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }