{ "type": "genome", "identifier": "GCF_007990835.1", "organism": "Flavobacterium columnare NBRC 100251 = ATCC 23463", "title": "Flavobacterium columnare NBRC 100251 = ATCC 23463", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007990835.1", "bioproject": "PRJNA224116", "biosample": "SAMD00169721", "wgs_master": "BJXE00000000.1", "refseq_category": "na", "taxid": "1218111", "species_taxid": "996", "organism_name": "Flavobacterium columnare NBRC 100251 = ATCC 23463", "infraspecific_name": "strain=NBRC 100251", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/01", "asm_name": "ASM799083v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_007990835.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/990/835/GCF_007990835.1_ASM799083v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3040347", "genome_size_ungapped": "3040347", "gc_percent": "31.500000", "replicon_count": "0", "scaffold_count": "203", "contig_count": "203", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007990835.1-RS_2024_09_09", "annotation_date": "2024-09-09", "total_gene_count": "2713", "protein_coding_gene_count": "2615", "non_coding_gene_count": "43", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-01", "dateModified": "2019-08-01", "datePublished": "2019-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium columnare NBRC 100251 = ATCC 23463" ], "sample_taxid": [ "1218111" ], "sample_host_organism": [ "Oncorhynchus tshawytscha" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:Washington, Snake River" ], "sample_host_location_id": [], "data_size": "0.849 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)": "3040347", "Number of Sequences": "203", "Longest Sequences (bp)": "112603", "N50 (bp)": "43225", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "31.3", "Number of CDSs": "2556", "Average Protein Length": "330.1", "Coding Ratio (%)": "83.3", "Number of rRNAs": "2", "Number of tRNAs": "37", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium columnare", "strain": "strain=NBRC 100251", "accession": "GCA_007990835.1", "taxid": 996, "species_taxid": 996, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 912, "total_fragments": 924, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium columnare", "strain": "strain=ATCC 23463", "accession": "GCA_002530675.1", "taxid": 996, "species_taxid": 996, "relation_to_type": "type", "validated": true, "ani": 99.9533, "matched_fragments": 888, "total_fragments": 924, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium davisii", "strain": "strain=90-106", "accession": "GCA_019565505.1", "taxid": 2906077, "species_taxid": 2906077, "relation_to_type": "type", "validated": true, "ani": 84.9837, "matched_fragments": 792, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium oreochromis", "strain": "strain=Costa Rica 04-02-TN", "accession": "GCA_019565455.1", "taxid": 2906078, "species_taxid": 2906078, "relation_to_type": "type", "validated": true, "ani": 83.9511, "matched_fragments": 751, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium terrae", "strain": "strain=DSM 18829", "accession": "GCA_900142035.1", "taxid": 415425, "species_taxid": 415425, "relation_to_type": "type", "validated": true, "ani": 78.4695, "matched_fragments": 290, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium supellecticarium", "strain": "strain=CC-CTC003", "accession": "GCA_004801375.1", "taxid": 2565924, "species_taxid": 2565924, "relation_to_type": "type", "validated": true, "ani": 78.2065, "matched_fragments": 86, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium haoranii", "strain": "strain=DSM 22807", "accession": "GCA_900142055.1", "taxid": 683124, "species_taxid": 683124, "relation_to_type": "type", "validated": true, "ani": 77.8842, "matched_fragments": 189, "total_fragments": 924, "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": 77.7476, "matched_fragments": 197, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium proteolyticum", "strain": "strain=1Y8A", "accession": "GCA_015223105.1", "taxid": 2911683, "species_taxid": 2911683, "relation_to_type": "type", "validated": true, "ani": 77.6337, "matched_fragments": 162, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sasangense", "strain": "strain=DSM 21067", "accession": "GCA_000686885.1", "taxid": 503361, "species_taxid": 503361, "relation_to_type": "type", "validated": true, "ani": 77.5609, "matched_fragments": 178, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium alkalisoli", "strain": "strain=XS-5", "accession": "GCA_008000935.1", "taxid": 2602769, "species_taxid": 2602769, "relation_to_type": "type", "validated": true, "ani": 77.2444, "matched_fragments": 66, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium granuli", "strain": "strain=DSM 17797", "accession": "GCA_003003155.1", "taxid": 280093, "species_taxid": 280093, "relation_to_type": "type", "validated": true, "ani": 77.2357, "matched_fragments": 98, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium luteum", "strain": "strain=NBRC 112527", "accession": "GCA_008806775.1", "taxid": 2026654, "species_taxid": 2026654, "relation_to_type": "type", "validated": true, "ani": 76.7721, "matched_fragments": 137, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter pacificus", "strain": "strain=H164", "accession": "GCA_008033385.1", "taxid": 2599389, "species_taxid": 2599389, "relation_to_type": "type", "validated": true, "ani": 76.3903, "matched_fragments": 70, "total_fragments": 924, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002530675.1", "gtdb_species": "s__Flavobacterium columnare", "ani": 99.9533, "matched_fragments": 888, "total_fragments": 924, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 39, "status": "conclusive" }, { "accession": "GCA_002217245.1", "gtdb_species": "s__Flavobacterium columnare_A", "ani": 91.3917, "matched_fragments": 775, "total_fragments": 924, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_900290975.1", "gtdb_species": "s__Flavobacterium columnare_D", "ani": 85.0343, "matched_fragments": 751, "total_fragments": 924, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.55", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002204895.1", "gtdb_species": 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78.4838, "matched_fragments": 289, "total_fragments": 924, "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": "GCF_004801375.1", "gtdb_species": "s__Flavobacterium sp004801375", "ani": 78.1638, "matched_fragments": 87, "total_fragments": 924, "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": "GCF_000686885.1", "gtdb_species": "s__Flavobacterium sasangense", "ani": 77.5609, "matched_fragments": 178, "total_fragments": 924, "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_001464475.1", "gtdb_species": "s__Flavobacterium sp001464475", "ani": 77.4812, "matched_fragments": 164, "total_fragments": 924, "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": -0.523, "cell_length": 0.477, "doubling_h": 1.271, "growth_tmp": 22.0, "optimum_tmp": 21.167, "optimum_ph": 6.5, "genome_size": 3172428.75, "gc_content": 31.296, "coding_genes": 2642.286, "rRNA16S_genes": 6.667, "tRNA_genes": 78.5, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.333, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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", "columnare", "NBRC", "100251", "=", "ATCC", "23463" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }