{ "type": "genome", "identifier": "GCF_003970385.1", "organism": "Vibrio aquaticus", "title": "Vibrio aquaticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ocean University of China", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003970385.1", "bioproject": "PRJNA224116", "biosample": "SAMN10584482", "wgs_master": "RXZH00000000.1", "refseq_category": "reference genome", "taxid": "2496559", "species_taxid": "2496559", "organism_name": "Vibrio aquaticus", "infraspecific_name": "strain=BEI207", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/24", "asm_name": "ASM397038v1", "asm_submitter": "Ocean University of China", "gbrs_paired_asm": "GCA_003970385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/970/385/GCF_003970385.1_ASM397038v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4451605", "genome_size_ungapped": "4451605", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "215", "contig_count": "215", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003970385.1-RS_2024_08_07", "annotation_date": "2024-08-07", "total_gene_count": "4074", "protein_coding_gene_count": "3909", "non_coding_gene_count": "132", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-24", "dateModified": "2018-12-24", "datePublished": "2018-12-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio aquaticus" ], "sample_taxid": [ "2496559" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: eastern marignal seas" ], "sample_host_location_id": [], "data_size": "1.276 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.08, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4451605", "Number of Sequences": "215", "Longest Sequences (bp)": "1378065", "N50 (bp)": "361544", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "45.1", "Number of CDSs": "3912", "Average Protein Length": "324.2", "Coding Ratio (%)": "85.5", "Number of rRNAs": "10", "Number of tRNAs": "111", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio aquaticus", "strain": "strain=BEI207", "accession": "GCA_003970385.1", "taxid": 2496559, "species_taxid": 2496559, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1431, "total_fragments": 1433, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio orientalis", "strain": "strain=CIP 102891", "accession": "GCA_000176235.1", "taxid": 28175, "species_taxid": 28175, "relation_to_type": "type", "validated": true, "ani": 83.7179, "matched_fragments": 944, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio orientalis", "strain": "strain=CIP 102891", "accession": "GCA_000222645.2", "taxid": 28175, "species_taxid": 28175, "relation_to_type": "type", "validated": true, "ani": 83.6346, "matched_fragments": 929, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio tubiashii", "strain": "strain=ATCC 19109", "accession": "GCA_000772105.1", "taxid": 29498, "species_taxid": 29498, "relation_to_type": "suspected-type", "validated": true, "ani": 82.2481, "matched_fragments": 748, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio tubiashii", "strain": "strain=ATCC 19109", "accession": "GCA_000222665.2", "taxid": 29498, "species_taxid": 29498, "relation_to_type": "suspected-type", "validated": true, "ani": 82.1915, "matched_fragments": 731, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio europaeus", "strain": "strain=PP-638", "accession": "GCA_001695575.1", "taxid": 300876, "species_taxid": 300876, "relation_to_type": "type", "validated": true, "ani": 82.1102, "matched_fragments": 780, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio bivalvicida", "strain": "strain=605", "accession": "GCA_001399455.2", "taxid": 1276888, "species_taxid": 1276888, "relation_to_type": "type", "validated": true, "ani": 81.8705, "matched_fragments": 728, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio pelagius", "strain": "strain=ATCC 25916", "accession": "GCA_024347575.1", "taxid": 28169, "species_taxid": 28169, "relation_to_type": "type", "validated": true, "ani": 80.7777, "matched_fragments": 474, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio campbellii", "strain": "strain=CAIM 519", "accession": "GCA_000334195.1", "taxid": 680, "species_taxid": 680, "relation_to_type": "type", "validated": true, "ani": 80.7111, "matched_fragments": 494, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio rhodolitus", "strain": "strain=G98", "accession": "GCA_003350325.1", "taxid": 2231649, "species_taxid": 2231649, "relation_to_type": "type", "validated": true, "ani": 80.4286, "matched_fragments": 496, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio coralliirubri", "strain": "strain=DSM 27495", "accession": "GCA_024347375.1", "taxid": 1516159, "species_taxid": 1516159, 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427, "total_fragments": 1433, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.08, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003970385.1", "gtdb_species": "s__Vibrio aquaticus", "ani": 100.0, "matched_fragments": 1431, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "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": "conclusive" }, { "accession": "GCF_004551525.1", "gtdb_species": "s__Vibrio ouci", "ani": 84.4655, "matched_fragments": 956, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "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_000176235.1", "gtdb_species": "s__Vibrio orientalis", "ani": 83.6993, "matched_fragments": 946, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "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": 2, "status": "-" }, { "accession": "GCF_013114545.1", "gtdb_species": "s__Vibrio sp013114545", "ani": 83.0924, "matched_fragments": 825, "total_fragments": 1433, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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