{ "type": "genome", "identifier": "GCF_012641465.1", "organism": "Vibrio agarilyticus", "title": "Vibrio agarilyticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Third Institute of Oceanography China", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012641465.1", "bioproject": "PRJNA224116", "biosample": "SAMN14599479", "wgs_master": "JABAIK000000000.1", "refseq_category": "reference genome", "taxid": "2726741", "species_taxid": "2726741", "organism_name": "Vibrio agarilyticus", "infraspecific_name": "strain=SM6", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/21", "asm_name": "ASM1264146v1", "asm_submitter": "Third Institute of Oceanography China", "gbrs_paired_asm": "GCA_012641465.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/641/465/GCF_012641465.1_ASM1264146v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4352422", "genome_size_ungapped": "4352422", "gc_percent": "46.500000", "replicon_count": "0", "scaffold_count": "74", "contig_count": "74", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012641465.1-RS_2024_08_07", "annotation_date": "2024-08-07", "total_gene_count": "3829", "protein_coding_gene_count": "3670", "non_coding_gene_count": "101", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-21", "dateModified": "2020-04-21", "datePublished": "2020-04-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio agarilyticus" ], "sample_taxid": [ "2726741" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.243 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)": "4352422", "Number of Sequences": "74", "Longest Sequences (bp)": "461004", "N50 (bp)": "211829", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "46.5", "Number of CDSs": "3700", "Average Protein Length": "332.1", "Coding Ratio (%)": "84.7", "Number of rRNAs": "7", "Number of tRNAs": "77", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio agarilyticus", "strain": "strain=SM6", "accession": "GCA_012641465.1", "taxid": 2726741, "species_taxid": 2726741, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1418, "total_fragments": 1420, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio rhodolitus", "strain": "strain=G98", "accession": "GCA_003350325.1", "taxid": 2231649, "species_taxid": 2231649, "relation_to_type": "type", "validated": true, "ani": 79.2299, "matched_fragments": 250, "total_fragments": 1420, "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": 79.1742, "matched_fragments": 242, "total_fragments": 1420, "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": 79.1575, "matched_fragments": 248, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio vulnificus", "strain": "strain=ATCC 27562", "accession": "GCA_000299635.1", "taxid": 672, "species_taxid": 672, "relation_to_type": "suspected-type", "validated": true, "ani": 79.153, "matched_fragments": 219, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio owensii", "strain": "strain=DY05", "accession": "GCA_000817815.1", "taxid": 696485, "species_taxid": 696485, "relation_to_type": "type", "validated": true, "ani": 79.053, "matched_fragments": 256, "total_fragments": 1420, "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": 78.9981, "matched_fragments": 252, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio azureus", "strain": "strain=LC2-005", "accession": "GCA_002849855.1", "taxid": 512649, "species_taxid": 512649, "relation_to_type": "type", "validated": true, "ani": 78.9503, "matched_fragments": 218, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fluvialis", "strain": "strain=NCTC11327", "accession": "GCA_900460245.1", "taxid": 676, "species_taxid": 676, "relation_to_type": "type", "validated": true, "ani": 78.9111, "matched_fragments": 216, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio rotiferianus", "strain": "strain=CAIM 577", "accession": "GCA_002741985.1", "taxid": 190895, "species_taxid": 190895, "relation_to_type": "type", "validated": true, "ani": 78.901, "matched_fragments": 275, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio azureus", "strain": "strain=NBRC 104587", "accession": "GCA_000467165.1", "taxid": 512649, "species_taxid": 512649, "relation_to_type": "type", "validated": true, "ani": 78.8586, "matched_fragments": 206, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fluvialis", "strain": "strain=ATCC 33809", "accession": "GCA_001558415.2", "taxid": 676, "species_taxid": 676, "relation_to_type": "type", "validated": true, "ani": 78.8501, "matched_fragments": 219, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio scophthalmi", "strain": "strain=LMG 19158", "accession": "GCA_000222585.2", "taxid": 45658, "species_taxid": 45658, "relation_to_type": "type", "validated": true, "ani": 78.8294, "matched_fragments": 247, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio hyugaensis", "strain": "strain=090810a", "accession": "GCA_000818435.1", "taxid": 1534743, "species_taxid": 1534743, "relation_to_type": "type", "validated": true, "ani": 78.7873, "matched_fragments": 271, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio azureus", "strain": "strain=NBRC 104587", "accession": "GCA_000400265.1", "taxid": 512649, "species_taxid": 512649, "relation_to_type": "type", "validated": true, "ani": 78.7281, "matched_fragments": 205, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio fluvialis", "strain": "strain=NBRC 103150", "accession": "GCA_001598835.1", "taxid": 676, "species_taxid": 676, "relation_to_type": "type", "validated": true, "ani": 78.7214, "matched_fragments": 216, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio xiamenensis", "strain": "strain=CGMCC 1.10228", "accession": "GCA_900100015.1", "taxid": 861298, "species_taxid": 861298, "relation_to_type": "type", "validated": true, "ani": 78.7092, "matched_fragments": 240, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio mimicus", "strain": "strain=NCTC11435", "accession": "GCA_900460385.1", "taxid": 674, "species_taxid": 674, "relation_to_type": "type", "validated": true, "ani": 78.5826, "matched_fragments": 222, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio cortegadensis", "strain": "strain=CECT 7227", "accession": "GCA_024347395.1", "taxid": 1328770, "species_taxid": 1328770, "relation_to_type": "type", "validated": true, "ani": 78.5292, "matched_fragments": 193, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio mimicus", "strain": "strain=CAIM 602", "accession": "GCA_000338875.1", "taxid": 674, "species_taxid": 674, "relation_to_type": "type", "validated": true, "ani": 78.4842, "matched_fragments": 225, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thaumasiovibrio occultus", "strain": "strain=C4II189", "accession": "GCA_019703815.1", "taxid": 1891184, "species_taxid": 1891184, "relation_to_type": "type", "validated": true, "ani": 78.3911, "matched_fragments": 138, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio tarriae", "strain": "strain=2521-89", "accession": "GCA_002216685.1", "taxid": 2014742, "species_taxid": 2014742, "relation_to_type": "type", "validated": true, "ani": 78.2969, "matched_fragments": 237, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=CIP 102972", "accession": "GCA_000176175.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 78.262, "matched_fragments": 251, "total_fragments": 1420, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_012641465.1", "gtdb_species": "s__Vibrio agarilyticus", "ani": 100.0, "matched_fragments": 1418, "total_fragments": 1420, "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_009938165.1", "gtdb_species": "s__Vibrio taketomensis", "ani": 79.6309, "matched_fragments": 237, "total_fragments": 1420, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.31", "min_intra_species_ani": "98.31", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002163755.1", "gtdb_species": "s__Vibrio campbellii", "ani": 79.433, "matched_fragments": 250, "total_fragments": 1420, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.60", "min_intra_species_ani": "95.95", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.77", "num_clustered_genomes": 78, "status": "-" }, { "accession": "GCF_015278125.1", "gtdb_species": "s__Vibrio sp015278125", "ani": 79.2655, "matched_fragments": 234, "total_fragments": 1420, "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_009938205.1", "gtdb_species": "s__Vibrio panuliri", "ani": 79.1913, "matched_fragments": 241, "total_fragments": 1420, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "98.57", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001274785.1", "gtdb_species": "s__Vibrio hepatarius", "ani": 79.1856, "matched_fragments": 224, "total_fragments": 1420, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.05", "min_intra_species_ani": "98.05", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000817815.1", "gtdb_species": "s__Vibrio owensii", "ani": 79.0607, "matched_fragments": 256, "total_fragments": 1420, 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "97.38", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_019226825.1", "gtdb_species": "s__Vibrio sp004804295", "ani": 78.7646, "matched_fragments": 191, "total_fragments": 1420, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "99.23", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900100015.1", "gtdb_species": "s__Vibrio xiamenensis", "ani": 78.6922, "matched_fragments": 241, "total_fragments": 1420, "gtdb_taxonomy": 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