{ "type": "genome", "identifier": "GCF_006539725.1", "organism": "Raoultella terrigena", "title": "Raoultella terrigena", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006539725.1", "bioproject": "PRJNA224116", "biosample": "SAMD00097550", "wgs_master": "BJNO00000000.1", "refseq_category": "na", "taxid": "577", "species_taxid": "577", "organism_name": "Raoultella terrigena", "infraspecific_name": "strain=NBRC 14941", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/06/12", "asm_name": "ASM653972v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_006539725.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/539/725/GCF_006539725.1_ASM653972v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5515279", "genome_size_ungapped": "5515279", "gc_percent": "57.500000", "replicon_count": "0", "scaffold_count": "55", "contig_count": "55", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006539725.1-RS_2024_12_23", "annotation_date": "2024-12-23", "total_gene_count": "5188", "protein_coding_gene_count": "5037", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-06-12", "dateModified": "2019-06-12", "datePublished": "2019-06-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Raoultella terrigena" ], "sample_taxid": [ "577" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.559 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.44, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5515279", "Number of Sequences": "55", "Longest Sequences (bp)": "587745", "N50 (bp)": "166009", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "57.4", "Number of CDSs": "5093", "Average Protein Length": "316.0", "Coding Ratio (%)": "87.5", "Number of rRNAs": "2", "Number of tRNAs": "44", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Raoultella terrigena", "strain": "strain=NBRC 14941", "accession": "GCA_006539725.1", "taxid": 577, "species_taxid": 577, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1814, "total_fragments": 1815, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Raoultella ornithinolytica", "strain": "strain=NBRC 105727", "accession": "GCA_001598295.1", "taxid": 54291, "species_taxid": 54291, "relation_to_type": "type", "validated": true, "ani": 86.0476, "matched_fragments": 1403, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Raoultella electrica", "strain": "strain=DSM 102253", "accession": "GCA_006711645.1", "taxid": 1259973, "species_taxid": 1259973, "relation_to_type": "type", "validated": true, "ani": 85.9474, "matched_fragments": 1325, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Raoultella planticola", "strain": "strain=ATCC 33531", "accession": "GCA_000735435.1", "taxid": 575, "species_taxid": 575, "relation_to_type": "type", "validated": true, "ani": 85.9247, "matched_fragments": 1400, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": 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"accession": "GCA_900636985.1", "taxid": 571, "species_taxid": 571, "relation_to_type": "type", "validated": true, "ani": 84.5695, "matched_fragments": 1298, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella oxytoca", "strain": "strain=DSM 5175", "accession": "GCA_020115535.1", "taxid": 571, "species_taxid": 571, "relation_to_type": "type", "validated": true, "ani": 84.55, "matched_fragments": 1290, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae subsp. pneumoniae", "strain": "strain=NBRC 14940", "accession": "GCA_001590945.1", "taxid": 72407, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 84.125, "matched_fragments": 1225, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae subsp. pneumoniae", "strain": "strain=DSM 30104", "accession": "GCA_000281755.1", "taxid": 72407, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 84.0974, "matched_fragments": 1236, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae", "strain": "strain=PartO-Kpneumoniae-RM8376", "accession": "GCA_022869665.1", "taxid": 573, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 84.0835, "matched_fragments": 1255, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae", "strain": "strain=ATCC 13883", "accession": "GCA_000742135.1", "taxid": 573, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 84.064, "matched_fragments": 1245, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae", "strain": "strain=FDAARGOS_775", "accession": "GCA_006364295.1", "taxid": 573, "species_taxid": 573, "relation_to_type": 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"matched_fragments": 961, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 81.9197, "matched_fragments": 924, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=DSM 16636", "accession": "GCA_021278985.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 81.6206, "matched_fragments": 885, "total_fragments": 1815, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter sichuanensis", "strain": "strain=WCHECL1597", "accession": "GCA_025002605.1", "taxid": 2071710, "species_taxid": 2071710, "relation_to_type": "type", "validated": true, "ani": 81.551, "matched_fragments": 924, "total_fragments": 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"mean_intra_species_ani": "99.21", "min_intra_species_ani": "98.49", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 44, "status": "-" }, { "accession": "GCF_014298075.1", "gtdb_species": "s__Klebsiella sp003752615", "ani": 85.7438, "matched_fragments": 1358, "total_fragments": 1815, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "98.38", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002925905.1", "gtdb_species": "s__Klebsiella michiganensis", "ani": 85.037, "matched_fragments": 1329, "total_fragments": 1815, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Klebsiella", "ani_circumscription_radius": 95.0, 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