{ "type": "genome", "identifier": "GCF_016918095.1", "organism": "Nakamurella flavida", "title": "Nakamurella flavida", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Yunnan University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016918095.1", "bioproject": "PRJNA224116", "biosample": "SAMN17377661", "wgs_master": "JAERWL000000000.1", "refseq_category": "reference genome", "taxid": "363630", "species_taxid": "363630", "organism_name": "Nakamurella flavida", "infraspecific_name": "strain=KCTC 19127", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/22", "asm_name": "ASM1691809v1", "asm_submitter": "Yunnan University", "gbrs_paired_asm": "GCA_016918095.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/918/095/GCF_016918095.1_ASM1691809v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4257173", "genome_size_ungapped": "4257173", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "18", "contig_count": "18", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016918095.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3789", "protein_coding_gene_count": "3730", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-22", "dateModified": "2021-02-22", "datePublished": "2021-02-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Nakamurella flavida" ], "sample_taxid": [ "363630" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.126 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.2, "contamination": 8.33, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4257173", "Number of Sequences": "18", "Longest Sequences (bp)": "612207", "N50 (bp)": "359433", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.6", "Number of CDSs": "3812", "Average Protein Length": "335.7", "Coding Ratio (%)": "90.2", "Number of rRNAs": "2", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nakamurella flavida", "strain": "strain=KCTC 19127", "accession": "GCA_016918095.1", "taxid": 363630, "species_taxid": 363630, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1384, "total_fragments": 1411, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nakamurella leprariae", "strain": "strain=YIM 132084", "accession": "GCA_016918035.1", "taxid": 2803911, "species_taxid": 2803911, "relation_to_type": "type", "validated": true, "ani": 79.9259, "matched_fragments": 628, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella flava", "strain": "strain=N5BH11", "accession": "GCA_005298075.1", "taxid": 2576308, "species_taxid": 2576308, "relation_to_type": "type", "validated": true, "ani": 79.3977, "matched_fragments": 613, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella multipartita", "strain": "strain=DSM 44233", "accession": "GCA_000024365.1", "taxid": 53461, "species_taxid": 53461, "relation_to_type": "type", "validated": true, "ani": 79.2767, "matched_fragments": 627, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella deserti", "strain": "strain=12Sc4-1", "accession": "GCA_003260015.1", "taxid": 2164074, "species_taxid": 2164074, "relation_to_type": "type", "validated": true, "ani": 78.9068, "matched_fragments": 587, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella endophytica", "strain": "strain=CGMCC 4.7308", "accession": "GCA_014646215.1", "taxid": 1748367, "species_taxid": 1748367, "relation_to_type": "type", "validated": true, "ani": 78.7959, "matched_fragments": 614, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella lactea", "strain": "strain=DSM 19367", "accession": "GCA_000426645.1", "taxid": 459515, "species_taxid": 459515, "relation_to_type": "type", "validated": true, "ani": 77.8288, "matched_fragments": 470, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Crossiella cryophila", "strain": "strain=DSM 44230", "accession": "GCA_014204915.1", "taxid": 43355, "species_taxid": 43355, "relation_to_type": "type", "validated": true, "ani": 76.8248, "matched_fragments": 479, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia spinosispora", "strain": "strain=DSM 44797", "accession": "GCA_000429025.1", "taxid": 103441, "species_taxid": 103441, "relation_to_type": "type", "validated": true, "ani": 76.7303, "matched_fragments": 381, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomycetospora corticicola", "strain": "strain=DSM 45772", "accession": "GCA_013409505.1", "taxid": 663602, "species_taxid": 663602, "relation_to_type": "type", "validated": true, "ani": 76.6481, "matched_fragments": 407, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.2, "contamination": 8.33, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_016918095.1", "gtdb_species": "s__Nakamurella flavida", "ani": 100.0, "matched_fragments": 1395, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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": "conclusive" }, { "accession": "GCF_016918035.1", "gtdb_species": "s__Nakamurella sp016918035", "ani": 79.9245, "matched_fragments": 627, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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_005298075.1", "gtdb_species": "s__Nakamurella flava", "ani": 79.4051, "matched_fragments": 611, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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_000024365.1", "gtdb_species": "s__Nakamurella multipartita", "ani": 79.2098, "matched_fragments": 636, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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_009707545.1", "gtdb_species": "s__Nakamurella sp009707545", "ani": 79.0463, 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1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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_014303395.1", "gtdb_species": "s__Nakamurella sp014303395", "ani": 78.1607, "matched_fragments": 480, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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": "GCA_017882715.1", "gtdb_species": "s__Nakamurella sp017882715", "ani": 78.0128, "matched_fragments": 387, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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_013409505.1", "gtdb_species": "s__Actinomycetospora corticicola", "ani": 76.6584, "matched_fragments": 405, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinomycetospora", "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": -0.046, "cell_length": -0.046, "doubling_h": 1.041, "growth_tmp": 25.0, "optimum_tmp": 25.0, "optimum_ph": 6.5, "genome_size": 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