{ "type": "genome", "identifier": "GCF_009753805.1", "organism": "Flavobacterium profundi", "title": "Flavobacterium profundi", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Oceanology Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009753805.1", "bioproject": "PRJNA224116", "biosample": "SAMN13495975", "wgs_master": "WQLW00000000.1", "refseq_category": "na", "taxid": "1774945", "species_taxid": "1774945", "organism_name": "Flavobacterium profundi", "infraspecific_name": "strain=TP390", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/12/14", "asm_name": "ASM975380v1", "asm_submitter": "Institute of Oceanology Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_009753805.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/753/805/GCF_009753805.1_ASM975380v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4013996", "genome_size_ungapped": "4013896", "gc_percent": "31.000000", "replicon_count": "0", "scaffold_count": "44", "contig_count": "44", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009753805.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3702", "protein_coding_gene_count": "3632", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-12-14", "dateModified": "2019-12-14", "datePublished": "2019-12-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium profundi" ], "sample_taxid": [ "1774945" ], "sample_host_organism": [ "sponge" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Yap seamount in the tropical western Pacific" ], "sample_host_location_id": [], "data_size": "1.109 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)": "4013996", "Number of Sequences": "44", "Longest Sequences (bp)": "564928", "N50 (bp)": "222460", "Gap Ratio (%)": "0.002491", "GCcontent (%)": "31.2", "Number of CDSs": "3646", "Average Protein Length": "332.9", "Coding Ratio (%)": "90.7", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium profundi", "strain": "strain=TP390", "accession": "GCA_006491645.1", 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"type", "validated": true, "ani": 79.4998, "matched_fragments": 574, "total_fragments": 1321, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium jumunjinense", "strain": "strain=HME7102", "accession": "GCA_021650975.2", "taxid": 998845, "species_taxid": 998845, "relation_to_type": "type", "validated": true, "ani": 78.9467, "matched_fragments": 571, "total_fragments": 1321, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium cyclinae", "strain": "strain=KSM-R2A25", "accession": "GCA_021172145.1", "taxid": 2895947, "species_taxid": 2895947, "relation_to_type": "type", "validated": true, "ani": 78.5739, "matched_fragments": 368, "total_fragments": 1321, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tibetense", "strain": "strain=YH5", "accession": "GCA_003293845.1", "taxid": 2233533, "species_taxid": 2233533, "relation_to_type": "type", "validated": true, "ani": 78.5328, 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1321, "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": 76.6491, "matched_fragments": 145, "total_fragments": 1321, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006491645.1", "gtdb_species": "s__Flavobacterium sp006491645", "ani": 100.0, "matched_fragments": 1321, "total_fragments": 1321, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": 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81.2345, "matched_fragments": 826, "total_fragments": 1321, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "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": -0.326, "cell_length": 0.278, "doubling_h": 1.271, "growth_tmp": 24.705, "optimum_tmp": 25.047, "optimum_ph": 7.141, "genome_size": 3988255.815, "gc_content": 34.893, "coding_genes": 3154.048, "rRNA16S_genes": 5.145, "tRNA_genes": 58.611, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.347, "range_salinity": 0.333, "facultative_respiration": 0.049, "anaerobic_respiration": 0.019, "aerobic_respiration": 0.931, "mesophilic_range_tmp": 0.789, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.21, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Flavobacterium", "profundi" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }