{ "type": "genome", "identifier": "GCF_900635955.1", "organism": "Cedecea lapagei", "title": "Cedecea lapagei", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900635955.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3282964", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "158823", "species_taxid": "158823", "organism_name": "Cedecea lapagei", "infraspecific_name": "strain=NCTC11466", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/20", "asm_name": "36672_A01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900635955.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/635/955/GCF_900635955.1_36672_A01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4778444", "genome_size_ungapped": "4778444", "gc_percent": "55.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900635955.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "4613", "protein_coding_gene_count": "4317", "non_coding_gene_count": "118", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-20", "dateModified": "2018-12-20", "datePublished": "2018-12-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Cedecea lapagei" ], "sample_taxid": [ "158823" ], "sample_host_organism": [ "not available" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [ "Canada" ], "sample_host_location_id": [], "data_size": "1.353 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)": "4778444", "Number of Sequences": "1", "Longest Sequences (bp)": "4778444", "N50 (bp)": "4778444", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "54.8", "Number of CDSs": "4594", "Average Protein Length": "305.2", "Coding Ratio (%)": "88.0", "Number of rRNAs": "22", "Number of tRNAs": "82", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cedecea lapagei", "strain": "strain=NCTC11466", "accession": "GCA_900635955.1", "taxid": 158823, "species_taxid": 158823, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1592, "total_fragments": 1592, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cedecea neteri", "strain": "strain=NBRC 105707", "accession": "GCA_001571265.1", "taxid": 158822, "species_taxid": 158822, "relation_to_type": "suspected-type", "validated": true, "ani": 89.0804, "matched_fragments": 1242, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cedecea davisae", "strain": "strain=NCTC13724", "accession": "GCA_900446735.1", "taxid": 158484, "species_taxid": 158484, "relation_to_type": "type", "validated": true, "ani": 85.8845, "matched_fragments": 1218, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cedecea davisae", "strain": "strain=DSM 4568", "accession": "GCA_000412335.2", "taxid": 158484, "species_taxid": 158484, "relation_to_type": "type", "validated": true, "ani": 85.8326, "matched_fragments": 1203, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Buttiauxella warmboldiae", "strain": "strain=CCUG 35512", "accession": "GCA_003818135.1", "taxid": 82993, "species_taxid": 82993, "relation_to_type": "type", "validated": true, "ani": 81.2109, "matched_fragments": 730, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei", "strain": "strain=FDAARGOS 1433", "accession": "GCA_019048245.1", "taxid": 158836, "species_taxid": 158836, "relation_to_type": "suspected-type", "validated": true, "ani": 80.9019, "matched_fragments": 740, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter wuhouensis", "strain": "strain=WCHEW120002", "accession": "GCA_004331265.1", "taxid": 2529381, "species_taxid": 2529381, "relation_to_type": "type", "validated": true, "ani": 80.8237, "matched_fragments": 772, "total_fragments": 1592, "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": 80.579, "matched_fragments": 796, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter dublinensis subsp. dublinensis", "strain": "strain=LMG 23823", "accession": "GCA_000409225.1", "taxid": 413498, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 80.502, "matched_fragments": 703, "total_fragments": 1592, "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": 80.3835, "matched_fragments": 740, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella grimontii", "strain": "strain=06D021", "accession": "GCA_900200035.1", "taxid": 2058152, "species_taxid": 2058152, "relation_to_type": "type", "validated": true, "ani": 80.2439, "matched_fragments": 716, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter sakazakii", "strain": "strain=ATCC 29544", "accession": "GCA_001971035.1", "taxid": 28141, "species_taxid": 28141, "relation_to_type": "type", "validated": true, "ani": 80.2216, "matched_fragments": 693, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter soli", "strain": "", "accession": "GCA_900185935.1", "taxid": 885040, "species_taxid": 885040, "relation_to_type": "type", "validated": true, "ani": 80.2051, "matched_fragments": 726, "total_fragments": 1592, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Raoultella ornithinolytica", "strain": "strain=NBRC 105727", "accession": "GCA_001598295.1", "taxid": 54291, "species_taxid": 54291, "relation_to_type": "type", 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"num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_000757825.1", "gtdb_species": "s__Cedecea neteri_A", "ani": 90.1441, "matched_fragments": 1317, "total_fragments": 1592, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cedecea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.14", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_009668225.1", "gtdb_species": "s__Cedecea sp009668225", "ani": 89.1224, "matched_fragments": 1286, "total_fragments": 1592, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cedecea", "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, 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"s__Cedecea sp000277545", "ani": 88.2741, "matched_fragments": 1286, "total_fragments": 1592, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cedecea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_011752815.1", "gtdb_species": "s__Cedecea sp011752815", "ani": 88.205, "matched_fragments": 1292, "total_fragments": 1592, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cedecea", "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": null, "cell_length": null, 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