{ "type": "genome", "identifier": "GCF_014596575.1", "organism": "Flavobacterium pokkalii", "title": "Flavobacterium pokkalii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "IMEDEA", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014596575.1", "bioproject": "PRJNA224116", "biosample": "SAMN06622876", "wgs_master": "NASZ00000000.1", "refseq_category": "reference genome", "taxid": "1940408", "species_taxid": "1940408", "organism_name": "Flavobacterium pokkalii", "infraspecific_name": "strain=L1I52", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/15", "asm_name": "ASM1459657v1", "asm_submitter": "IMEDEA", "gbrs_paired_asm": "GCA_014596575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/596/575/GCF_014596575.1_ASM1459657v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3894211", "genome_size_ungapped": "3894211", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "69", "contig_count": "69", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014596575.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3268", "protein_coding_gene_count": "3192", "non_coding_gene_count": "57", "pubmed_id": "32629361" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-15", "dateModified": "2020-09-15", "datePublished": "2020-09-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Flavobacterium pokkalii" ], "sample_taxid": [ "1940408" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "India" ], "sample_host_location_id": [], "data_size": "1.089 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)": "3894211", "Number of Sequences": "69", "Longest Sequences (bp)": "448566", "N50 (bp)": "136549", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.9", "Number of CDSs": "3154", "Average Protein Length": "361.8", "Coding Ratio (%)": "87.9", "Number of rRNAs": "0", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Flavobacterium pokkalii", "strain": "strain=L1I52", "accession": "GCA_014596575.1", "taxid": 1940408, "species_taxid": 1940408, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1265, "total_fragments": 1269, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavobacterium daejeonense", "strain": "strain=DSM 17708", "accession": "GCA_000425425.1", "taxid": 350893, "species_taxid": 350893, "relation_to_type": "type", "validated": true, "ani": 94.1998, "matched_fragments": 1054, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium glycines", "strain": "strain=Gm-149", "accession": "GCA_900100165.1", "taxid": 551990, "species_taxid": 551990, "relation_to_type": "type", "validated": true, "ani": 83.671, "matched_fragments": 894, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium glycines", "strain": "strain=NBRC 105008", "accession": "GCA_001686935.1", "taxid": 551990, "species_taxid": 551990, "relation_to_type": "type", "validated": true, "ani": 83.6332, "matched_fragments": 899, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium glycines", "strain": "strain=NBRC 105008", "accession": "GCA_007989005.1", "taxid": 551990, "species_taxid": 551990, "relation_to_type": "type", "validated": true, "ani": 83.5722, "matched_fragments": 904, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium palustre", "strain": "strain=CGMCC 1.12811", "accession": "GCA_014639535.1", "taxid": 1476463, "species_taxid": 1476463, "relation_to_type": "type", "validated": true, "ani": 83.1068, "matched_fragments": 880, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium commune", "strain": "strain=PK15", "accession": "GCA_001857965.1", "taxid": 1306519, "species_taxid": 1306519, "relation_to_type": "type", "validated": true, "ani": 82.2846, "matched_fragments": 839, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium sufflavum", "strain": "strain=BBQ-12", "accession": "GCA_004016525.1", "taxid": 1921138, "species_taxid": 1921138, "relation_to_type": "type", "validated": true, "ani": 82.0906, "matched_fragments": 827, "total_fragments": 1269, "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": 78.5447, "matched_fragments": 397, "total_fragments": 1269, "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": 78.4336, "matched_fragments": 381, "total_fragments": 1269, "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": 78.4176, "matched_fragments": 415, "total_fragments": 1269, "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": 78.2962, "matched_fragments": 419, "total_fragments": 1269, "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": 77.0353, "matched_fragments": 134, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014596575.1", "gtdb_species": 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glycines", "ani": 83.6609, "matched_fragments": 894, "total_fragments": 1269, "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": 3, "status": "-" }, { "accession": "GCF_014639535.1", "gtdb_species": "s__Flavobacterium palustre", "ani": 83.1143, "matched_fragments": 880, "total_fragments": 1269, "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_001857965.1", "gtdb_species": "s__Flavobacterium commune", "ani": 82.2834, 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"total_fragments": 1269, "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_000695795.1", "gtdb_species": "s__Flavobacterium seoulense", "ani": 81.9326, "matched_fragments": 756, "total_fragments": 1269, "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", "pokkalii" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }