{ "type": "genome", "identifier": "GCF_000222665.1", "organism": "Vibrio tubiashii ATCC 19109", "title": "Vibrio tubiashii ATCC 19109", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Food and Drug Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000222665.1", "bioproject": "PRJNA224116", "biosample": "SAMN02951905", "wgs_master": "AFWI00000000.1", "refseq_category": "na", "taxid": "1051646", "species_taxid": "29498", "organism_name": "Vibrio tubiashii ATCC 19109", "infraspecific_name": "strain=ATCC 19109", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2011/08/04", "asm_name": "ASM22266v1", "asm_submitter": "Food and Drug Administration", "gbrs_paired_asm": "GCA_000222665.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/222/665/GCF_000222665.1_ASM22266v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5467464", "genome_size_ungapped": "5467464", "gc_percent": "45.000000", "replicon_count": "0", "scaffold_count": "226", "contig_count": "226", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000222665.1-RS_2024_03_31", "annotation_date": "2024-03-31", "total_gene_count": "5210", "protein_coding_gene_count": "4997", "non_coding_gene_count": "83", "pubmed_id": "21930677" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2011-08-04", "dateModified": "2011-08-04", "datePublished": "2011-08-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio tubiashii ATCC 19109" ], "sample_taxid": [ "1051646" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.572 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)": "5467464", "Number of Sequences": "226", "Longest Sequences (bp)": "193731", "N50 (bp)": "51475", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "44.9", "Number of CDSs": "4864", "Average Protein Length": "313.0", "Coding Ratio (%)": "83.5", "Number of rRNAs": "2", "Number of tRNAs": "74", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 100.0, "matched_fragments": 1710, "total_fragments": 1721, "ani_threshold": 95, "status": "conclusive" }, { "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": 99.9943, "matched_fragments": 1716, "total_fragments": 1721, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio europaeus", "strain": "strain=PP-638", "accession": "GCA_001695575.1", "taxid": 300876, "species_taxid": 300876, "relation_to_type": "type", "validated": true, "ani": 94.4788, "matched_fragments": 1493, "total_fragments": 1721, "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": 87.3096, "matched_fragments": 1224, "total_fragments": 1721, "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": 82.2614, "matched_fragments": 745, "total_fragments": 1721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio aquaticus", "strain": "strain=BEI207", "accession": "GCA_003970385.1", "taxid": 2496559, "species_taxid": 2496559, "relation_to_type": "type", "validated": true, "ani": 82.2553, "matched_fragments": 732, "total_fragments": 1721, "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": 80.4637, "matched_fragments": 488, "total_fragments": 1721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fortis", "strain": "strain=LMG 21557", "accession": "GCA_024347475.1", "taxid": 212667, "species_taxid": 212667, "relation_to_type": "type", "validated": true, "ani": 80.2931, "matched_fragments": 447, "total_fragments": 1721, "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": 80.2511, "matched_fragments": 438, "total_fragments": 1721, "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": 80.1402, "matched_fragments": 426, "total_fragments": 1721, "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": 80.1401, "matched_fragments": 440, "total_fragments": 1721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio natriegens", "strain": "strain=14048", "accession": "GCA_024508015.1", "taxid": 691, "species_taxid": 691, "relation_to_type": "type", "validated": true, "ani": 80.01, "matched_fragments": 460, "total_fragments": 1721, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000772105.1", "gtdb_species": "s__Vibrio tubiashii", "ani": 99.9943, "matched_fragments": 1716, "total_fragments": 1721, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.61", "min_intra_species_ani": "95.85", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001695575.1", "gtdb_species": "s__Vibrio europaeus", "ani": 94.4788, "matched_fragments": 1493, "total_fragments": 1721, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001399455.2", "gtdb_species": "s__Vibrio bivalvicida", "ani": 87.3096, "matched_fragments": 1224, "total_fragments": 1721, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.39", "min_intra_species_ani": "98.39", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": 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82.36, "matched_fragments": 801, "total_fragments": 1721, "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_003970385.1", "gtdb_species": "s__Vibrio aquaticus", "ani": 82.2762, "matched_fragments": 729, "total_fragments": 1721, "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": 82.2617, "matched_fragments": 768, "total_fragments": 1721, 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