{ "type": "genome", "identifier": "GCF_003254585.1", "organism": "Flavobacterium sharifuzzamanii", "title": "Flavobacterium sharifuzzamanii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Zhejiang University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003254585.1", "bioproject": "PRJNA224116", "biosample": "SAMN09279961", "wgs_master": "QJGZ00000000.1", "refseq_category": "reference genome", "taxid": "2211133", "species_taxid": "2211133", "organism_name": "Flavobacterium sharifuzzamanii", "infraspecific_name": "strain=A7.6", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/18", "asm_name": "ASM325458v1", "asm_submitter": "Zhejiang University", "gbrs_paired_asm": "GCA_003254585.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/254/585/GCF_003254585.1_ASM325458v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5261779", "genome_size_ungapped": "5261779", "gc_percent": "33.500000", "replicon_count": "0", "scaffold_count": "42", "contig_count": "42", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003254585.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4516", "protein_coding_gene_count": "4443", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-18", "dateModified": "2018-06-18", "datePublished": "2018-06-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium sharifuzzamanii" ], "sample_taxid": [ "2211133" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.462 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)": "5261779", "Number of Sequences": "42", "Longest Sequences (bp)": "671003", "N50 (bp)": "472843", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "33.6", "Number of CDSs": "4430", "Average Protein Length": "344.2", "Coding Ratio (%)": "86.9", "Number of rRNAs": "2", "Number of tRNAs": "52", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium sharifuzzamanii", "strain": "strain=A7.6", "accession": "GCA_003254585.1", "taxid": 2211133, "species_taxid": 2211133, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1738, "total_fragments": 1739, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium nitrogenifigens", "strain": "strain=DSM 29982", "accession": "GCA_900182675.1", "taxid": 1617283, "species_taxid": 1617283, "relation_to_type": "type", "validated": true, "ani": 92.0168, "matched_fragments": 1431, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium nitrogenifigens", "strain": "strain=NXU-44", "accession": "GCA_003254565.1", "taxid": 1617283, "species_taxid": 1617283, "relation_to_type": "type", "validated": true, "ani": 92.0096, "matched_fragments": 1423, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium tistrianum", "strain": "strain=GB 56.1", "accession": "GCA_003254545.1", "taxid": 1685414, "species_taxid": 1685414, "relation_to_type": "type", "validated": true, "ani": 91.0809, "matched_fragments": 1449, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium anhuiense", "strain": "strain=CGMCC 1.6859", "accession": "GCA_900101855.1", "taxid": 459526, "species_taxid": 459526, "relation_to_type": "suspected-type", "validated": true, "ani": 89.3766, "matched_fragments": 1368, "total_fragments": 1739, "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": 88.5488, "matched_fragments": 1359, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium ginsenosidimutans", "strain": "strain=THG 01", "accession": "GCA_003254625.1", "taxid": 687844, "species_taxid": 687844, "relation_to_type": "type", "validated": true, "ani": 87.7777, "matched_fragments": 1324, "total_fragments": 1739, "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": 85.3352, "matched_fragments": 1262, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium phragmitis", "strain": "strain=CGMCC 1.10370", "accession": "GCA_900112575.1", "taxid": 739143, "species_taxid": 739143, "relation_to_type": "type", "validated": true, "ani": 85.3099, "matched_fragments": 1244, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium zhairuonense", "strain": "strain=A5.7", "accession": "GCA_004352915.1", "taxid": 2493631, "species_taxid": 2493631, "relation_to_type": "type", "validated": true, "ani": 83.9277, "matched_fragments": 1101, "total_fragments": 1739, "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": 83.6298, "matched_fragments": 1077, "total_fragments": 1739, "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": 83.5755, "matched_fragments": 1130, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sediminilitoris", "strain": "strain=YSM-43", "accession": "GCA_023008245.1", "taxid": 2024526, "species_taxid": 2024526, "relation_to_type": "type", "validated": true, "ani": 77.0325, "matched_fragments": 207, "total_fragments": 1739, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, 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"min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003254545.1", "gtdb_species": "s__Flavobacterium tistrianum", "ani": 91.0809, "matched_fragments": 1449, "total_fragments": 1739, "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_013388355.1", "gtdb_species": "s__Flavobacterium sp013388355", "ani": 90.5854, "matched_fragments": 1032, "total_fragments": 1739, "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", 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"-" }, { "accession": "GCF_900101855.1", "gtdb_species": "s__Flavobacterium anhuiense", "ani": 89.3875, "matched_fragments": 1367, "total_fragments": 1739, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flavobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "97.43", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_009826975.1", "gtdb_species": "s__Flavobacterium sp009826975", "ani": 89.2041, "matched_fragments": 1410, "total_fragments": 1739, "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": 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"s__Flavobacterium zhairuonense", "ani": 83.945, "matched_fragments": 1099, "total_fragments": 1739, "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_000425445.1", "gtdb_species": "s__Flavobacterium denitrificans", "ani": 83.819, "matched_fragments": 1014, "total_fragments": 1739, "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", "sharifuzzamanii" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }