{ "type": "genome", "identifier": "GCF_015223435.1", "organism": "Vibrio hibernica", "title": "Vibrio hibernica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University College Cork", "publication": [ {} ], "properties": { "assembly_accession": "GCF_015223435.1", "bioproject": "PRJNA224116", "biosample": "SAMN11954197", "wgs_master": "VHKO00000000.1", "refseq_category": "reference genome", "taxid": "2587465", "species_taxid": "2587465", "organism_name": "Vibrio hibernica", "infraspecific_name": "strain=B1.19", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/11/03", "asm_name": "ASM1522343v1", "asm_submitter": "University College Cork", "gbrs_paired_asm": "GCA_015223435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/015/223/435/GCF_015223435.1_ASM1522343v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3425268", "genome_size_ungapped": "3425268", "gc_percent": "40.500000", "replicon_count": "0", "scaffold_count": "135", "contig_count": "135", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_015223435.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3177", "protein_coding_gene_count": "3023", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-11-03", "dateModified": "2020-11-03", "datePublished": "2020-11-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio hibernica" ], "sample_taxid": [ "2587465" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Ireland" ], "sample_host_location_id": [], "data_size": "0.978 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)": "3425268", "Number of Sequences": "135", "Longest Sequences (bp)": "282643", "N50 (bp)": "60909", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.6", "Number of CDSs": "3071", "Average Protein Length": "314.8", "Coding Ratio (%)": "84.7", "Number of rRNAs": "2", "Number of tRNAs": "55", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio hibernica", "strain": "strain=B1.19", "accession": "GCA_015223435.1", "taxid": 2587465, "species_taxid": 2587465, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1069, "total_fragments": 1073, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio casei", "strain": "strain=DSM 22364", "accession": "GCA_002218025.2", "taxid": 673372, "species_taxid": 673372, "relation_to_type": "type", "validated": true, "ani": 81.4388, "matched_fragments": 473, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio algicola", "strain": "strain=SM1977", "accession": "GCA_009601765.2", "taxid": 2662262, "species_taxid": 2662262, "relation_to_type": "type", "validated": true, "ani": 80.8011, "matched_fragments": 584, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio rumoiensis", "strain": "strain=FERM P-14531", "accession": "GCA_002218045.2", "taxid": 76258, "species_taxid": 76258, "relation_to_type": "type", "validated": true, "ani": 79.8251, "matched_fragments": 447, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio litoralis", "strain": "strain=DSM 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2077090, "relation_to_type": "type", "validated": true, "ani": 79.248, "matched_fragments": 392, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio echinoideorum", "strain": "strain=DSM 107264", "accession": "GCA_024347455.1", "taxid": 2100116, "species_taxid": 2100116, "relation_to_type": "type", "validated": true, "ani": 78.6572, "matched_fragments": 167, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio panuliri", "strain": "strain=LBS 2", "accession": "GCA_008830195.1", "taxid": 1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 78.4455, "matched_fragments": 150, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio panuliri", "strain": "strain=JCM 19500", "accession": "GCA_009938205.1", "taxid": 1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 78.4357, "matched_fragments": 152, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio neonatus", "strain": "strain=JCM 21521", "accession": "GCA_024346975.1", "taxid": 278860, "species_taxid": 278860, "relation_to_type": "type", "validated": true, "ani": 78.3533, "matched_fragments": 157, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio ziniensis", "strain": "strain=ZWAL4003", "accession": "GCA_011064285.1", "taxid": 2711221, "species_taxid": 2711221, "relation_to_type": "type", "validated": true, "ani": 78.2164, "matched_fragments": 150, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio ezurae", "strain": "strain=HDS1-1", "accession": "GCA_003568985.1", "taxid": 252583, "species_taxid": 252583, "relation_to_type": "type", "validated": true, "ani": 78.0586, "matched_fragments": 163, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliivibrio fischeri", "strain": "strain=ATCC 7744", "accession": "GCA_016464335.1", "taxid": 668, "species_taxid": 668, "relation_to_type": "suspected-type", "validated": true, "ani": 77.943, "matched_fragments": 190, "total_fragments": 1073, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015223435.1", "gtdb_species": "s__Vibrio hibernica", "ani": 100.0, "matched_fragments": 1069, "total_fragments": 1073, "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_014694375.1", "gtdb_species": "s__Vibrio sp014694375", "ani": 91.7826, "matched_fragments": 882, "total_fragments": 1073, "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_002218025.2", "gtdb_species": "s__Vibrio casei", "ani": 81.4388, "matched_fragments": 473, "total_fragments": 1073, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.63", "min_intra_species_ani": "99.33", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_009601765.2", "gtdb_species": "s__Vibrio sp009601765", "ani": 80.7999, "matched_fragments": 585, 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