{ "type": "genome", "identifier": "GCF_000757385.1", "organism": "Flavobacterium aquatile LMG 4008 = ATCC 11947", "title": "Flavobacterium aquatile LMG 4008 = ATCC 11947", "description": "na", "data type": "Genome sequencing and assembly", "organization": "GCAT-SEEK", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000757385.1", "bioproject": "PRJNA224116", "biosample": "SAMN03025770", "wgs_master": "JRHH00000000.1", "refseq_category": "reference genome", "taxid": "1453498", "species_taxid": "245", "organism_name": "Flavobacterium aquatile LMG 4008 = ATCC 11947", "infraspecific_name": "strain=LMG 4008", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/09/23", "asm_name": "ASM75738v1", "asm_submitter": "GCAT-SEEK", "gbrs_paired_asm": "GCA_000757385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/757/385/GCF_000757385.1_ASM75738v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3490856", "genome_size_ungapped": "3490856", "gc_percent": "32.000000", "replicon_count": "0", "scaffold_count": "7", "contig_count": "7", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000757385.1-RS_2024_04_07", "annotation_date": "2024-04-07", "total_gene_count": "3190", "protein_coding_gene_count": "3132", "non_coding_gene_count": "45", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-09-23", "dateModified": "2014-09-23", "datePublished": "2014-09-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium aquatile LMG 4008 = ATCC 11947" ], "sample_taxid": [ "1453498" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Unknown" ], "sample_host_location_id": [], "data_size": "0.962 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)": "3490856", "Number of Sequences": "7", "Longest Sequences (bp)": "856388", "N50 (bp)": "642039", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "32.2", "Number of CDSs": "3151", "Average Protein Length": "331.8", "Coding Ratio (%)": "89.8", "Number of rRNAs": "4", "Number of tRNAs": "38", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium aquatile", "strain": "strain=LMG 4008", "accession": "GCA_000757385.1", "taxid": 245, "species_taxid": 245, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1162, "total_fragments": 1162, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium aquatile", "strain": "strain=ATCC 11947", "accession": "GCA_002217235.1", "taxid": 245, "species_taxid": 245, "relation_to_type": "type", "validated": true, "ani": 99.9894, "matched_fragments": 1149, "total_fragments": 1162, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium aquatile", "strain": "strain=NBRC 15052", "accession": "GCA_006539785.1", "taxid": 245, "species_taxid": 245, "relation_to_type": "type", "validated": true, "ani": 99.9669, "matched_fragments": 1134, "total_fragments": 1162, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium dankookense", "strain": "strain=DSM 25687", "accession": "GCA_004362665.1", "taxid": 706186, "species_taxid": 706186, "relation_to_type": "type", "validated": true, "ani": 80.6012, "matched_fragments": 490, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium macrobrachii", "strain": "strain=an-8", "accession": "GCA_014486675.1", "taxid": 591204, "species_taxid": 591204, "relation_to_type": "type", "validated": true, "ani": 80.4004, "matched_fragments": 479, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium macrobrachii", "strain": "strain=LMG 25203", "accession": "GCA_014385475.2", "taxid": 591204, "species_taxid": 591204, "relation_to_type": "type", "validated": true, "ani": 80.3453, "matched_fragments": 495, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium solisilvae", "strain": "strain=SE-s27", "accession": "GCA_012911605.1", "taxid": 1852019, "species_taxid": 1852019, "relation_to_type": "type", "validated": true, "ani": 79.8862, "matched_fragments": 476, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium channae", "strain": "strain=KSM-R2A30", "accession": "GCA_021172165.1", "taxid": 2897181, "species_taxid": 2897181, "relation_to_type": "type", "validated": true, "ani": 78.5829, "matched_fragments": 333, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sangjuense", "strain": "strain=GS03", "accession": "GCA_004797125.1", "taxid": 2518177, "species_taxid": 2518177, "relation_to_type": "type", "validated": true, "ani": 78.4938, "matched_fragments": 376, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium saccharophilum", "strain": "strain=DSM 1811", "accession": "GCA_900142735.1", "taxid": 29534, "species_taxid": 29534, "relation_to_type": "type", "validated": true, "ani": 77.8402, "matched_fragments": 308, "total_fragments": 1162, "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": 77.8241, "matched_fragments": 278, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium panacis", "strain": "strain=DCY106", "accession": "GCA_024649945.1", "taxid": 2962567, "species_taxid": 2962567, "relation_to_type": "type", "validated": true, "ani": 77.6802, "matched_fragments": 296, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium urumqiense", "strain": "strain=CGMCC 1.9230", "accession": "GCA_900108015.1", "taxid": 935224, "species_taxid": 935224, "relation_to_type": "type", "validated": true, "ani": 77.534, "matched_fragments": 301, "total_fragments": 1162, "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": 77.4882, "matched_fragments": 303, "total_fragments": 1162, "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": 77.2855, "matched_fragments": 171, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium amniphilum", "strain": "strain=KYPY10", "accession": "GCA_023634845.1", "taxid": 1834035, "species_taxid": 1834035, "relation_to_type": "type", "validated": true, "ani": 77.1402, "matched_fragments": 181, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000757385.1", "gtdb_species": "s__Flavobacterium aquatile", "ani": 100.0, "matched_fragments": 1162, "total_fragments": 1162, "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": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCA_003525665.1", "gtdb_species": "s__Flavobacterium sp003525665", "ani": 89.7815, "matched_fragments": 759, "total_fragments": 1162, "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": "-" }, { 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"gtdb_species": "s__Flavobacterium dankookense", "ani": 80.5967, "matched_fragments": 490, "total_fragments": 1162, "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": "-" }, { "accession": "GCA_903913315.1", "gtdb_species": "s__Flavobacterium sp903913315", "ani": 80.0065, "matched_fragments": 421, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.66", "min_intra_species_ani": "99.66", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_903838055.1", "gtdb_species": "s__Flavobacterium sp903838055", "ani": 79.5746, "matched_fragments": 401, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_903888655.1", "gtdb_species": "s__Flavobacterium sp903888655", "ani": 79.3926, "matched_fragments": 308, "total_fragments": 1162, "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": -0.302, "cell_length": 0.0, "doubling_h": 1.271, "growth_tmp": 28.0, "optimum_tmp": 25.047, "optimum_ph": 7.141, "genome_size": 3490856.0, "gc_content": 32.229, "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": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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", "aquatile", "LMG", "4008", "=", "ATCC", "11947" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }