{ "type": "genome", "identifier": "GCF_030409805.1", "organism": "Algibacter miyuki", "title": "Algibacter miyuki", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Institute of Microbiology of the Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030409805.1", "bioproject": "PRJNA224116", "biosample": "SAMN35653682", "wgs_master": "JAUFQP000000000.1", "refseq_category": "reference genome", "taxid": "1306933", "species_taxid": "1306933", "organism_name": "Algibacter miyuki", "infraspecific_name": "strain=CECT 8300", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/07/05", "asm_name": "ASM3040980v1", "asm_submitter": "The Institute of Microbiology of the Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_030409805.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/409/805/GCF_030409805.1_ASM3040980v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4936881", "genome_size_ungapped": "4936881", "gc_percent": "34.000000", "replicon_count": "0", "scaffold_count": "24", "contig_count": "24", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030409805.1-RS_2024_03_15", "annotation_date": "2024-03-15", "total_gene_count": "4077", "protein_coding_gene_count": "3938", "non_coding_gene_count": "73", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-07-05", "dateModified": "2023-07-05", "datePublished": "2023-07-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Algibacter miyuki" ], "sample_taxid": [ "1306933" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.357 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)": "4936881", "Number of Sequences": "24", "Longest Sequences (bp)": "1459866", "N50 (bp)": "1139518", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.1", "Number of CDSs": "4020", "Average Protein Length": "360.6", "Coding Ratio (%)": "88.1", "Number of rRNAs": "12", "Number of tRNAs": "52", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Algibacter lectus", "strain": "strain=DSM 15365", "accession": "GCA_900112395.1", "taxid": 221126, "species_taxid": 221126, 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"total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arenitalea lutea", "strain": "strain=P7-3-5", "accession": "GCA_000283015.1", "taxid": 1178825, "species_taxid": 1178825, "relation_to_type": "type", "validated": true, "ani": 78.4751, "matched_fragments": 429, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavivirga algicola", "strain": "strain=Y03", "accession": "GCA_012910715.1", "taxid": 2729136, "species_taxid": 2729136, "relation_to_type": "type", "validated": true, "ani": 78.1178, "matched_fragments": 359, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacinutrix mariniflava", "strain": "strain=AKS432", "accession": "GCA_001418015.1", "taxid": 342955, "species_taxid": 342955, "relation_to_type": "type", "validated": true, "ani": 77.9332, "matched_fragments": 348, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella flava", "strain": "strain=T58", "accession": "GCA_004310325.1", "taxid": 2527939, "species_taxid": 2527939, "relation_to_type": "type", "validated": true, "ani": 77.5092, "matched_fragments": 298, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella ulvae", "strain": "strain=HU1-3", "accession": "GCA_016827605.1", "taxid": 2799948, "species_taxid": 2799948, "relation_to_type": "type", "validated": true, "ani": 77.451, "matched_fragments": 305, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aestuariivivens insulae", "strain": "strain=AH-MY3", "accession": "GCA_022662195.1", "taxid": 1621988, "species_taxid": 1621988, "relation_to_type": "type", "validated": true, "ani": 77.3899, "matched_fragments": 277, "total_fragments": 1633, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, 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"status": "-" }, { "accession": "GCF_009796805.1", "gtdb_species": "s__Algibacter sp009796805", "ani": 82.4813, "matched_fragments": 917, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter", "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_008033385.1", "gtdb_species": "s__Algibacter pacificus", "ani": 81.4751, "matched_fragments": 701, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter", "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_014202225.1", 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sp015355625", "ani": 78.8931, "matched_fragments": 481, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tamlana_A", "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_000789235.1", "gtdb_species": "s__Wocania ichthyoenteri", "ani": 78.6222, "matched_fragments": 468, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Wocania", "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_001418015.1", "gtdb_species": "s__Lacinutrix mariniflava", "ani": 77.9332, "matched_fragments": 348, "total_fragments": 1633, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lacinutrix", "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": -0.435, "cell_length": 0.366, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 25.888, "optimum_ph": 7.414, "genome_size": 4139669.333, "gc_content": 31.801, "coding_genes": 3262.667, "rRNA16S_genes": 2.0, "tRNA_genes": 40.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.625, "range_salinity": null, "facultative_respiration": 0.142, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.857, "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": [ "Algibacter", "miyuki" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }