{ "type": "genome", "identifier": "GCA_018376975.1", "organism": "Citrobacter freundii", "title": "Citrobacter freundii", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018376975.1", "bioproject": "PRJNA698986", "biosample": "SAMN17801330", "wgs_master": "JAHAAH000000000.1", "refseq_category": "na", "taxid": "546", "species_taxid": "546", "organism_name": "Citrobacter freundii", "infraspecific_name": "", "isolate": "L3_063_250G2_dasL3_063_250G2_concoct_5", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/16", "asm_name": "ASM1837697v1", "submitter": "University of California, Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/376/975/GCA_018376975.1_ASM1837697v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-16", "dateModified": "2021-05-16", "datePublished": "2021-05-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Citrobacter freundii" ], "sample_taxid": [ "546" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Pittsburgh, Magee-Womens Hospital of UPMC" ], "sample_host_location_id": [], "data_size": "1.315 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 75.34, "contamination": 2.08, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4580636", "Number of Sequences": "288", "Longest Sequences (bp)": "96693", "N50 (bp)": "24466", "Gap Ratio (%)": "0.016439", "GCcontent (%)": "51.9", "Number of CDSs": "4181", "Average Protein Length": "303.6", "Coding Ratio (%)": "83.1", "Number of rRNAs": "0", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Citrobacter freundii", "strain": "strain=NBRC 12681", "accession": "GCA_000759735.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 97.456, "matched_fragments": 1190, "total_fragments": 1372, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Citrobacter freundii", "strain": "strain=MTCC 1658", "accession": "GCA_000312465.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 97.4272, "matched_fragments": 1196, "total_fragments": 1372, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Citrobacter freundii", "strain": "strain=ATCC 8090", "accession": "GCA_011064845.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 97.4097, "matched_fragments": 1204, "total_fragments": 1372, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Citrobacter freundii", "strain": "strain=ATCC 8090", "accession": "GCA_000734905.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 97.4043, "matched_fragments": 1159, "total_fragments": 1372, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Citrobacter portucalensis", "strain": "strain=A60", "accession": "GCA_002042885.1", "taxid": 1639133, "species_taxid": 1639133, "relation_to_type": "type", "validated": true, "ani": 94.6854, "matched_fragments": 1172, "total_fragments": 1372, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter arsenatis", "strain": "strain=LY-1", "accession": "GCA_004353845.1", "taxid": 2546350, 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1812935, "relation_to_type": "type", "validated": true, "ani": 81.8307, "matched_fragments": 744, "total_fragments": 1372, "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": 81.6193, "matched_fragments": 733, "total_fragments": 1372, "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": 81.5352, "matched_fragments": 753, "total_fragments": 1372, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 75.34, "contamination": 2.08, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_011064845.1", "gtdb_species": 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