{ "type": "genome", "identifier": "GCF_003634775.1", "organism": "Chryseobacterium defluvii", "title": "Chryseobacterium defluvii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003634775.1", "bioproject": "PRJNA224116", "biosample": "SAMN05421836", "wgs_master": "RBXB00000000.1", "refseq_category": "reference genome", "taxid": "160396", "species_taxid": "160396", "organism_name": "Chryseobacterium defluvii", "infraspecific_name": "strain=DSM 14219", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/11", "asm_name": "ASM363477v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003634775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/634/775/GCF_003634775.1_ASM363477v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3712841", "genome_size_ungapped": "3712414", "gc_percent": "36.500000", "replicon_count": "0", "scaffold_count": "8", "contig_count": "8", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003634775.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3467", "protein_coding_gene_count": "3376", "non_coding_gene_count": "71", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-11", "dateModified": "2018-10-11", "datePublished": "2018-10-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Chryseobacterium defluvii" ], "sample_taxid": [ "160396" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "1.040 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)": "3712841", "Number of Sequences": "8", "Longest Sequences (bp)": "1447845", "N50 (bp)": "1111720", "Gap Ratio (%)": "0.011501", "GCcontent (%)": "36.6", "Number of CDSs": "3360", "Average Protein Length": "329.5", "Coding Ratio (%)": "89.5", "Number of rRNAs": "3", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chryseobacterium defluvii", "strain": "strain=DSM 14219", "accession": "GCA_003634775.1", "taxid": 160396, "species_taxid": 160396, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1233, "total_fragments": 1233, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chryseobacterium daecheongense", "strain": "strain=DSM 15235", "accession": "GCA_004365465.1", "taxid": 192389, "species_taxid": 192389, "relation_to_type": "type", "validated": true, "ani": 86.4935, "matched_fragments": 1013, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium daecheongense", "strain": "strain=DSM 15235", "accession": "GCA_003729955.1", "taxid": 192389, "species_taxid": 192389, "relation_to_type": "type", "validated": true, "ani": 86.4597, "matched_fragments": 1014, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium gwangjuense", "strain": "strain=THG-A18", "accession": "GCA_021311115.1", "taxid": 1069980, "species_taxid": 1069980, "relation_to_type": "type", "validated": true, "ani": 80.4741, "matched_fragments": 665, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium rhizoplanae", "strain": "strain=DSM 29371", "accession": "GCA_900182655.1", "taxid": 1609531, "species_taxid": 1609531, "relation_to_type": "type", "validated": true, "ani": 80.4568, "matched_fragments": 709, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium tagetis", "strain": "strain=RG1", "accession": "GCA_016735585.2", "taxid": 2801334, "species_taxid": 2801334, "relation_to_type": "type", "validated": true, "ani": 80.3279, "matched_fragments": 673, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium vaccae", "strain": "strain=CA7", "accession": "GCA_009602705.1", "taxid": 2604424, "species_taxid": 2604424, "relation_to_type": "type", "validated": true, "ani": 80.3168, "matched_fragments": 687, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium geocarposphaerae", "strain": "strain=DSM 27617", "accession": "GCA_002797535.1", "taxid": 1416776, "species_taxid": 1416776, "relation_to_type": "type", "validated": true, "ani": 80.2742, "matched_fragments": 678, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium panacisoli", "strain": "strain=Gsoil 183", "accession": "GCA_008274625.1", "taxid": 1807141, "species_taxid": 1807141, "relation_to_type": "type", "validated": true, "ani": 80.27, "matched_fragments": 698, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium piperi", "strain": "strain=ATCC BAA-1782", "accession": "GCA_002285635.2", "taxid": 558152, "species_taxid": 558152, "relation_to_type": "type", "validated": true, "ani": 80.2503, "matched_fragments": 629, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium piperi", "strain": "strain=CTM", "accession": "GCA_000737775.1", "taxid": 558152, "species_taxid": 558152, "relation_to_type": "type", "validated": true, "ani": 80.2373, "matched_fragments": 627, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium culicis", "strain": "strain=DSM 23031", "accession": "GCA_900108365.1", "taxid": 680127, "species_taxid": 680127, "relation_to_type": "type", "validated": true, "ani": 80.1773, "matched_fragments": 696, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium ginsenosidimutans", "strain": "strain=THG 15", "accession": "GCA_024807225.1", "taxid": 687846, "species_taxid": 687846, "relation_to_type": "type", "validated": true, "ani": 80.0905, "matched_fragments": 721, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium angstadtii", "strain": "strain=KM", "accession": "GCA_001045465.1", "taxid": 558151, "species_taxid": 558151, "relation_to_type": "type", "validated": true, "ani": 80.0732, "matched_fragments": 698, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium phocaeense", "strain": "strain=6021061333", "accession": "GCA_900169075.1", "taxid": 1816690, "species_taxid": 1816690, "relation_to_type": "type", "validated": true, "ani": 79.8018, "matched_fragments": 696, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium taeanense", "strain": "strain=DSM 17071", "accession": "GCA_900099685.1", "taxid": 311334, "species_taxid": 311334, "relation_to_type": "type", "validated": true, "ani": 79.7945, "matched_fragments": 607, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium fistulae", "strain": "strain=CECT 9393", "accession": "GCA_902729325.1", "taxid": 2675058, "species_taxid": 2675058, "relation_to_type": "type", "validated": true, "ani": 79.2503, "matched_fragments": 477, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium schmidteae", "strain": "strain=Marseille-P9602", "accession": "GCA_903166575.1", "taxid": 2730404, "species_taxid": 2730404, "relation_to_type": "type", "validated": true, "ani": 79.1553, "matched_fragments": 548, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003634775.1", "gtdb_species": "s__Chryseobacterium defluvii", "ani": 100.0, "matched_fragments": 1233, "total_fragments": 1233, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Weeksellaceae;g__Chryseobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": 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