{ "type": "genome", "identifier": "GCF_001482365.1", "organism": "Kocuria flava", "title": "Kocuria flava", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hubei University of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001482365.1", "bioproject": "PRJNA224116", "biosample": "SAMN04270876", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "446860", "species_taxid": "446860", "organism_name": "Kocuria flava", "infraspecific_name": "strain=HO-9041", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/12/24", "asm_name": "ASM148236v1", "asm_submitter": "Hubei University of Technology", "gbrs_paired_asm": "GCA_001482365.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/482/365/GCF_001482365.1_ASM148236v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3638342", "genome_size_ungapped": "3638342", "gc_percent": "74.000000", "replicon_count": "5", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-03-03", "total_gene_count": "3305", "protein_coding_gene_count": "3194", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-12-24", "dateModified": "2015-12-24", "datePublished": "2015-12-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Kocuria flava" ], "sample_taxid": [ "446860" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Xinjiang" ], "sample_host_location_id": [], "data_size": "0.953 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)": "3638342", "Number of Sequences": "5", "Longest Sequences (bp)": "3504335", "N50 (bp)": "3504335", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.9", "Number of CDSs": "3291", "Average Protein Length": "327.9", "Coding Ratio (%)": "89.0", "Number of rRNAs": "9", "Number of tRNAs": "62", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Kocuria flava", "strain": "strain=HO-9041", "accession": "GCA_001482365.1", "taxid": 446860, "species_taxid": 446860, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1210, "total_fragments": 1210, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kocuria rosea", "strain": "strain=DSM 20447", "accession": "GCA_006717035.1", "taxid": 1275, "species_taxid": 1275, "relation_to_type": "suspected-type", "validated": true, "ani": 85.5112, "matched_fragments": 875, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria rosea", "strain": "strain=ATCC 186", "accession": "GCA_006094695.1", "taxid": 1275, "species_taxid": 1275, "relation_to_type": "suspected-type", "validated": true, "ani": 85.4764, "matched_fragments": 897, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria turfanensis", "strain": "strain=HO-9042", "accession": "GCA_001580365.1", "taxid": 388357, "species_taxid": 388357, "relation_to_type": "type", "validated": true, "ani": 85.4584, "matched_fragments": 902, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria rosea", "strain": "strain=ATCC 186", "accession": "GCA_003124035.1", "taxid": 1275, "species_taxid": 1275, "relation_to_type": "suspected-type", "validated": true, "ani": 85.3881, "matched_fragments": 897, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria sediminis", "strain": "strain=JCM 17929", "accession": "GCA_009735315.1", "taxid": 1038857, "species_taxid": 1038857, "relation_to_type": "type", "validated": true, "ani": 85.3855, "matched_fragments": 858, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria dechangensis", "strain": "strain=CGMCC 1.12187", "accession": "GCA_014636775.1", "taxid": 1176249, "species_taxid": 1176249, "relation_to_type": "type", "validated": true, "ani": 85.0946, "matched_fragments": 879, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micrococcus luteus", "strain": "strain=ATCC 4698", "accession": "GCA_003417425.1", "taxid": 1270, "species_taxid": 1270, "relation_to_type": "type", "validated": true, "ani": 79.0872, "matched_fragments": 320, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter mobilis", "strain": "strain=E918", "accession": "GCA_012395835.1", "taxid": 2724944, "species_taxid": 2724944, "relation_to_type": "type", "validated": true, "ani": 78.212, "matched_fragments": 412, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter jiangjiafuii", "strain": "strain=zg-ZUI227", "accession": "GCA_018622995.1", "taxid": 2817475, "species_taxid": 2817475, "relation_to_type": "type", "validated": true, "ani": 77.9957, "matched_fragments": 300, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter jiangjiafuii", "strain": "strain=zg-ZUI227", "accession": "GCA_017898065.1", "taxid": 2817475, "species_taxid": 2817475, "relation_to_type": "type", "validated": true, "ani": 77.6875, "matched_fragments": 292, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas palmilytica", "strain": "strain=EW123", "accession": "GCA_021590045.1", "taxid": 2608402, "species_taxid": 2608402, "relation_to_type": "type", "validated": true, "ani": 76.9442, "matched_fragments": 323, "total_fragments": 1210, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001482365.1", "gtdb_species": "s__Kocuria flava", "ani": 100.0, "matched_fragments": 1209, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001483755.1", "gtdb_species": "s__Kocuria polaris_A", "ani": 85.5339, "matched_fragments": 887, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "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_001580365.1", "gtdb_species": "s__Kocuria turfanensis", "ani": 85.4552, "matched_fragments": 906, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.38", "min_intra_species_ani": "95.01", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_006094695.1", "gtdb_species": "s__Kocuria rosea", "ani": 85.4452, "matched_fragments": 899, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.85", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 16, "status": "-" }, { "accession": "GCF_014636775.1", "gtdb_species": "s__Kocuria dechangensis", "ani": 85.117, "matched_fragments": 876, "total_fragments": 1210, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "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": -0.009, "cell_length": -0.009, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 29.863, "optimum_ph": 7.416, "genome_size": 3638341.5, "gc_content": 73.945, "coding_genes": 3077.667, "rRNA16S_genes": 3.0, "tRNA_genes": 50.0, "gram_stain": 1.0, "sporulation": 0.125, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Kocuria", "flava" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }