{ "type": "genome", "identifier": "GCF_013408415.1", "organism": "Nocardioides daedukensis", "title": "Nocardioides daedukensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013408415.1", "bioproject": "PRJNA224116", "biosample": "SAMN05878395", "wgs_master": "JACCAA000000000.1", "refseq_category": "reference genome", "taxid": "634462", "species_taxid": "634462", "organism_name": "Nocardioides daedukensis", "infraspecific_name": "strain=DSM 23819", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/13", "asm_name": "ASM1340841v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_013408415.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/408/415/GCF_013408415.1_ASM1340841v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3809834", "genome_size_ungapped": "3809834", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013408415.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3729", "protein_coding_gene_count": "3664", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-13", "dateModified": "2020-07-13", "datePublished": "2020-07-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardioides daedukensis" ], "sample_taxid": [ "634462" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.030 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)": "3809834", "Number of Sequences": "1", "Longest Sequences (bp)": "3809834", "N50 (bp)": "3809834", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.3", "Number of CDSs": "3713", "Average Protein Length": "317.3", "Coding Ratio (%)": "92.8", "Number of rRNAs": "6", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardioides daedukensis", "strain": "strain=DSM 23819", "accession": "GCA_013408415.1", "taxid": 634462, "species_taxid": 634462, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1269, 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"below_threshold" }, { "organism_name": "Nocardioides luti", "strain": "strain=KIGAM211", "accession": "GCA_014212315.1", "taxid": 2761101, "species_taxid": 2761101, "relation_to_type": "type", "validated": true, "ani": 80.2281, "matched_fragments": 628, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides guangzhouensis", "strain": "strain=130", "accession": "GCA_004519545.1", "taxid": 2497878, "species_taxid": 2497878, "relation_to_type": "type", "validated": true, "ani": 80.1054, "matched_fragments": 623, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides okcheonensis", "strain": "strain=MMS20-HV4-12", "accession": "GCA_020991065.1", "taxid": 2894081, "species_taxid": 2894081, "relation_to_type": "type", "validated": true, "ani": 80.0932, "matched_fragments": 572, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides ungokensis", "strain": "strain=LMG 28591", "accession": "GCA_013466985.1", "taxid": 1643322, "species_taxid": 1643322, "relation_to_type": "type", "validated": true, "ani": 80.0509, "matched_fragments": 596, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lacusdianchii", "strain": "strain=JXJ CY 38", "accession": "GCA_020102855.1", "taxid": 2783664, "species_taxid": 2783664, "relation_to_type": "type", "validated": true, "ani": 80.0279, "matched_fragments": 555, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides szechwanensis", "strain": "strain=NBRC 108562", "accession": "GCA_007992395.1", "taxid": 1005944, "species_taxid": 1005944, "relation_to_type": "type", "validated": true, "ani": 79.9711, "matched_fragments": 585, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides szechwanensis", "strain": "strain=CGMCC 1.11147", "accession": "GCA_900103935.1", "taxid": 1005944, "species_taxid": 1005944, "relation_to_type": "type", "validated": true, "ani": 79.9133, "matched_fragments": 592, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides furvisabuli", "strain": "strain=JCM 13813", "accession": "GCA_021083185.1", "taxid": 375542, "species_taxid": 375542, "relation_to_type": "type", "validated": true, "ani": 79.8957, "matched_fragments": 550, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides cavernaquae", "strain": "strain=K1W22B-1", "accession": "GCA_003600895.1", "taxid": 2321396, "species_taxid": 2321396, "relation_to_type": "type", "validated": true, "ani": 79.8687, "matched_fragments": 482, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lijunqiniae", "strain": "strain=S-531", "accession": "GCA_015024225.1", "taxid": 2760832, "species_taxid": 2760832, "relation_to_type": "type", "validated": true, "ani": 79.7949, "matched_fragments": 586, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides ferulae", "strain": "strain=SZ4R5S7", "accession": "GCA_003660455.1", "taxid": 2340821, "species_taxid": 2340821, "relation_to_type": "type", "validated": true, "ani": 79.7879, "matched_fragments": 632, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides houyundeii", "strain": "strain=78", "accession": "GCA_002865585.1", "taxid": 2045452, "species_taxid": 2045452, "relation_to_type": "type", "validated": true, "ani": 79.7656, "matched_fragments": 544, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides alcanivorans", "strain": "strain=NGK65", "accession": "GCA_021555175.1", "taxid": 2897352, "species_taxid": 2897352, "relation_to_type": "type", "validated": true, "ani": 79.6989, "matched_fragments": 598, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides litoris", "strain": "strain=DSM 103718", "accession": "GCA_006346315.1", "taxid": 1926648, "species_taxid": 1926648, "relation_to_type": "type", "validated": true, "ani": 79.5447, "matched_fragments": 576, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides phosphati", "strain": "strain=CGMCC 4.7371", "accession": "GCA_014646375.1", "taxid": 1867775, "species_taxid": 1867775, "relation_to_type": "type", "validated": true, "ani": 79.5405, "matched_fragments": 490, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides flavescens", "strain": "strain=YIM 123512", "accession": "GCA_009823805.1", "taxid": 2691959, "species_taxid": 2691959, "relation_to_type": "type", 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