{ "type": "genome", "identifier": "GCF_003970355.1", "organism": "Flavobacterium bomense", "title": "Flavobacterium bomense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Microbiology, Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003970355.1", "bioproject": "PRJNA224116", "biosample": "SAMN10606319", "wgs_master": "RYDJ00000000.1", "refseq_category": "reference genome", "taxid": "2497483", "species_taxid": "2497483", "organism_name": "Flavobacterium bomense", "infraspecific_name": "strain=RB1N8", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/24", "asm_name": "ASM397035v1", "asm_submitter": "Institute of Microbiology, Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_003970355.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/970/355/GCF_003970355.1_ASM397035v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3820548", "genome_size_ungapped": "3820136", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "309", "contig_count": "309", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003970355.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3576", "protein_coding_gene_count": "3362", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-24", "dateModified": "2018-12-24", "datePublished": "2018-12-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium bomense" ], "sample_taxid": [ "2497483" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.082 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3820548", "Number of Sequences": "309", "Longest Sequences (bp)": "648428", "N50 (bp)": "146079", "Gap Ratio (%)": "0.010810", "GCcontent (%)": "34.8", "Number of CDSs": "3108", "Average Protein Length": "326.3", "Coding Ratio (%)": "79.6", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium bomense", "strain": "strain=RB1N8", "accession": "GCA_003970355.1", "taxid": 2497483, "species_taxid": 2497483, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1136, "total_fragments": 1136, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium xueshanense", "strain": "strain=CGMCC 1.9227", "accession": "GCA_900112975.1", "taxid": 935223, "species_taxid": 935223, "relation_to_type": "type", "validated": true, "ani": 85.1665, "matched_fragments": 745, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sinopsychrotolerans", "strain": "strain=CGMCC 1.8704", "accession": "GCA_900110375.1", "taxid": 604089, "species_taxid": 604089, "relation_to_type": "type", "validated": true, "ani": 84.9296, "matched_fragments": 744, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium psychrolimnae", "strain": "strain=LMG 22018", "accession": "GCA_003312425.1", "taxid": 249351, "species_taxid": 249351, "relation_to_type": "type", "validated": true, "ani": 84.8452, "matched_fragments": 785, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium limicola", "strain": "strain=DSM 15094", "accession": "GCA_003634755.1", "taxid": 180441, "species_taxid": 180441, "relation_to_type": "type", "validated": true, "ani": 84.6701, "matched_fragments": 733, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium petrolei", "strain": "strain=Kopri-42", "accession": "GCA_003314435.2", "taxid": 2259594, "species_taxid": 2259594, "relation_to_type": "type", "validated": true, "ani": 84.6501, "matched_fragments": 757, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium ranwuense", "strain": "strain=LB2P22", "accession": "GCA_004349315.1", "taxid": 2541725, "species_taxid": 2541725, "relation_to_type": "type", "validated": true, "ani": 84.3693, "matched_fragments": 782, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium rhamnosiphilum", "strain": "strain=LB3P52", "accession": "GCA_004349195.1", "taxid": 2541724, "species_taxid": 2541724, "relation_to_type": "type", "validated": true, "ani": 84.294, "matched_fragments": 753, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium glaciei", "strain": "strain=CGMCC 1.5380", "accession": "GCA_007994155.1", "taxid": 386300, "species_taxid": 386300, "relation_to_type": "type", "validated": true, "ani": 83.582, "matched_fragments": 699, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium glaciei", "strain": "strain=DSM 19728", "accession": "GCA_003350545.1", "taxid": 386300, "species_taxid": 386300, "relation_to_type": "type", "validated": true, "ani": 83.5089, "matched_fragments": 700, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium gawalongense", "strain": "strain=GSP16", "accession": "GCA_007097265.1", "taxid": 2594432, "species_taxid": 2594432, "relation_to_type": "type", "validated": true, "ani": 82.2237, "matched_fragments": 682, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium xinjiangense", "strain": "strain=CGMCC 1.2749", "accession": "GCA_900142885.1", "taxid": 178356, "species_taxid": 178356, "relation_to_type": "type", "validated": true, "ani": 81.635, "matched_fragments": 663, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium taihuense", "strain": "strain=NAS39", "accession": "GCA_019351435.1", "taxid": 2857508, "species_taxid": 2857508, "relation_to_type": "type", "validated": true, "ani": 78.7087, "matched_fragments": 436, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium soyae", "strain": "strain=SCIV07", "accession": "GCA_021245985.1", "taxid": 2903098, "species_taxid": 2903098, "relation_to_type": "type", "validated": true, "ani": 78.0824, "matched_fragments": 365, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium endoglycinae", "strain": "strain=BB8", "accession": "GCA_017352115.1", "taxid": 2816357, "species_taxid": 2816357, "relation_to_type": "type", "validated": true, "ani": 78.0202, "matched_fragments": 353, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tyrosinilyticum", "strain": "strain=KCTC 42726", "accession": "GCA_023656565.1", "taxid": 1658740, "species_taxid": 1658740, "relation_to_type": "type", "validated": true, "ani": 77.9281, "matched_fragments": 318, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium branchiophilum", "strain": "strain=DSM 24789", "accession": "GCA_006716585.1", "taxid": 55197, "species_taxid": 55197, "relation_to_type": "type", "validated": true, "ani": 77.5415, "matched_fragments": 179, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_003968755.1", "gtdb_species": "s__Flavobacterium sp003968755", "ani": 96.4413, "matched_fragments": 920, "total_fragments": 1136, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.86", "min_intra_species_ani": "96.58", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.82", "num_clustered_genomes": 9, "status": "conclusive" }, { "accession": "GCF_900112975.1", "gtdb_species": "s__Flavobacterium xueshanense", "ani": 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