{ "type": "genome", "identifier": "GCF_900142735.1", "organism": "Flavobacterium saccharophilum", "title": "Flavobacterium saccharophilum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900142735.1", "bioproject": "PRJNA224116", "biosample": "SAMN05444366", "wgs_master": "FRBY00000000.1", "refseq_category": "reference genome", "taxid": "29534", "species_taxid": "29534", "organism_name": "Flavobacterium saccharophilum", "infraspecific_name": "strain=DSM 1811", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/12/03", "asm_name": "IMG-taxon 2698536752 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900142735.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/142/735/GCF_900142735.1_IMG-taxon_2698536752_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5209309", "genome_size_ungapped": "5209309", "gc_percent": "34.000000", "replicon_count": "0", "scaffold_count": "14", "contig_count": "14", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900142735.1-RS_2024_11_06", "annotation_date": "2024-11-06", "total_gene_count": "4415", "protein_coding_gene_count": "4341", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-12-03", "dateModified": "2016-12-03", "datePublished": "2016-12-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium saccharophilum" ], "sample_taxid": [ "29534" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: River Wey" ], "sample_host_location_id": [], "data_size": "1.448 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)": "5209309", "Number of Sequences": "14", "Longest Sequences (bp)": "1286734", "N50 (bp)": "766213", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.0", "Number of CDSs": "4333", "Average Protein Length": "347.7", "Coding Ratio (%)": "86.8", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium saccharophilum", "strain": "strain=DSM 1811", "accession": "GCA_900142735.1", "taxid": 29534, "species_taxid": 29534, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1729, "total_fragments": 1729, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium frigidimaris", "strain": "strain=DSM 15937", "accession": "GCA_002217275.1", "taxid": 262320, "species_taxid": 262320, "relation_to_type": "type", "validated": true, "ani": 89.2275, "matched_fragments": 1282, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium pectinovorum", "strain": "strain=ATCC 19366", "accession": "GCA_002217365.1", "taxid": 29533, "species_taxid": 29533, "relation_to_type": "type", "validated": true, "ani": 84.397, "matched_fragments": 1122, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium pectinovorum", "strain": "strain=DSM 6368", "accession": "GCA_900142715.1", "taxid": 29533, "species_taxid": 29533, "relation_to_type": "type", "validated": true, "ani": 84.3513, "matched_fragments": 1122, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium piscis", "strain": "strain=CCUG 60099", "accession": "GCA_001686925.1", "taxid": 1114874, "species_taxid": 1114874, "relation_to_type": "type", "validated": true, "ani": 84.1706, "matched_fragments": 1119, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium bizetiae", "strain": "strain=CIP 105534", "accession": "GCA_904425415.1", "taxid": 2704140, "species_taxid": 2704140, "relation_to_type": "type", "validated": true, "ani": 83.6882, "matched_fragments": 1116, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium psychroterrae", "strain": "strain=CCM 8827", "accession": "GCA_018380615.1", "taxid": 2133767, "species_taxid": 2133767, "relation_to_type": "type", "validated": true, "ani": 83.5938, "matched_fragments": 1081, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium hibernum", "strain": "strain=ATCC 51468", "accession": "GCA_002217315.1", "taxid": 37752, "species_taxid": 37752, "relation_to_type": "type", "validated": true, "ani": 83.5643, "matched_fragments": 1082, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium aquidurense", "strain": "strain=DSM 18293", "accession": "GCA_002217195.1", "taxid": 362413, "species_taxid": 362413, "relation_to_type": "type", "validated": true, "ani": 83.5043, "matched_fragments": 1074, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium chilense", "strain": "strain=LMG 26360", "accession": "GCA_001602525.1", "taxid": 946677, "species_taxid": 946677, "relation_to_type": "type", "validated": true, "ani": 83.3072, "matched_fragments": 1065, "total_fragments": 1729, "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": 83.1478, "matched_fragments": 1041, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium reichenbachii", "strain": "strain=DSM 21791", "accession": "GCA_002217435.1", "taxid": 362418, "species_taxid": 362418, "relation_to_type": "type", "validated": true, "ani": 82.6171, "matched_fragments": 990, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium circumlabens", "strain": "strain=P5626", "accession": "GCA_004345565.1", "taxid": 2133765, "species_taxid": 2133765, "relation_to_type": "type", "validated": true, "ani": 82.5642, "matched_fragments": 1023, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium circumlabens", "strain": "strain=CCM 8828", "accession": "GCA_004369705.1", "taxid": 2133765, "species_taxid": 2133765, "relation_to_type": "type", "validated": true, "ani": 82.5574, "matched_fragments": 1023, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium hydrophilum", "strain": "strain=IMCC34758", "accession": "GCA_003202405.1", "taxid": 2211445, "species_taxid": 2211445, "relation_to_type": "type", "validated": true, "ani": 82.1672, "matched_fragments": 982, "total_fragments": 1729, "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": 82.0325, "matched_fragments": 994, "total_fragments": 1729, "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": 81.9985, "matched_fragments": 999, "total_fragments": 1729, "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": 81.9546, "matched_fragments": 990, "total_fragments": 1729, "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": 77.4091, "matched_fragments": 175, "total_fragments": 1729, "ani_threshold": 95, "status": "below_threshold" } ], 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"1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014844035.1", "gtdb_species": "s__Flavobacterium sp014844035", "ani": 88.2182, "matched_fragments": 1323, "total_fragments": 1729, "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_001427905.1", "gtdb_species": "s__Flavobacterium sp001427905", "ani": 87.9315, "matched_fragments": 1267, "total_fragments": 1729, "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": 0.397, "doubling_h": 1.271, "growth_tmp": 24.0, "optimum_tmp": 25.047, "optimum_ph": 7.141, "genome_size": 5209309.0, "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": 0.0, "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", "saccharophilum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }