{ "type": "genome", "identifier": "GCF_006346315.1", "organism": "Nocardioides litoris", "title": "Nocardioides litoris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Center for Disease Control and Prevention", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006346315.1", "bioproject": "PRJNA224116", "biosample": "SAMN11959963", "wgs_master": "VDMR00000000.1", "refseq_category": "reference genome", "taxid": "1926648", "species_taxid": "1926648", "organism_name": "Nocardioides litoris", "infraspecific_name": "strain=DSM 103718", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/06/14", "asm_name": "ASM634631v1", "asm_submitter": "Chinese Center for Disease Control and Prevention", "gbrs_paired_asm": "GCA_006346315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/346/315/GCF_006346315.1_ASM634631v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4658177", "genome_size_ungapped": "4658177", "gc_percent": "74.000000", "replicon_count": "0", "scaffold_count": "22", "contig_count": "22", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006346315.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "4474", "protein_coding_gene_count": "4406", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-06-14", "dateModified": "2019-06-14", "datePublished": "2019-06-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardioides litoris" ], "sample_taxid": [ "1926648" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Chungcheongnam-do province, Taean-gun, Wonbuk-myeon district, Sindu-ri beach" ], "sample_host_location_id": [], "data_size": "1.203 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)": "4658177", "Number of Sequences": "22", "Longest Sequences (bp)": "1700144", "N50 (bp)": "856467", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "74.1", "Number of CDSs": "4438", "Average Protein Length": "322.9", "Coding Ratio (%)": "92.3", "Number of rRNAs": "4", "Number of tRNAs": "69", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardioides litoris", "strain": "strain=DSM 103718", 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81.2861, "matched_fragments": 929, "total_fragments": 1541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides panaciterrulae", "strain": "strain=DSM 21350", "accession": "GCA_013409645.1", "taxid": 661492, "species_taxid": 661492, "relation_to_type": "type", "validated": true, "ani": 80.7728, "matched_fragments": 762, "total_fragments": 1541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides soli", "strain": "strain=DSM 105498", "accession": "GCA_014191495.1", "taxid": 1036020, "species_taxid": 1036020, "relation_to_type": "type", "validated": true, "ani": 80.741, "matched_fragments": 807, "total_fragments": 1541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides sediminis", "strain": "strain=KCTC 19271", "accession": "GCA_003047295.1", "taxid": 433648, "species_taxid": 433648, "relation_to_type": "type", "validated": true, "ani": 80.7051, "matched_fragments": 743, 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"status": "below_threshold" }, { "organism_name": "Nocardioides zhouii", "strain": "strain=HLT2-9", "accession": "GCA_004137345.1", "taxid": 1168729, "species_taxid": 1168729, "relation_to_type": "type", "validated": true, "ani": 80.1781, "matched_fragments": 719, "total_fragments": 1541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides islandensis", "strain": "strain=KCTC 19275", "accession": "GCA_015352455.1", "taxid": 433663, "species_taxid": 433663, "relation_to_type": "type", "validated": true, "ani": 79.9212, "matched_fragments": 743, "total_fragments": 1541, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides donggukensis", "strain": "strain=MJB4", "accession": "GCA_014842875.1", "taxid": 2774019, "species_taxid": 2774019, "relation_to_type": "type", "validated": true, "ani": 79.9145, "matched_fragments": 673, "total_fragments": 1541, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { 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