{ "type": "genome", "identifier": "GCF_003144035.1", "organism": "Vibrio albus", "title": "Vibrio albus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University at Weihai", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003144035.1", "bioproject": "PRJNA224116", "biosample": "SAMN09205056", "wgs_master": "QFWT00000000.1", "refseq_category": "reference genome", "taxid": "2200953", "species_taxid": "2200953", "organism_name": "Vibrio albus", "infraspecific_name": "strain=E4404", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/05/20", "asm_name": "ASM314403v1", "asm_submitter": "Shandong University at Weihai", "gbrs_paired_asm": "GCA_003144035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/144/035/GCF_003144035.1_ASM314403v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4265296", "genome_size_ungapped": "4265296", "gc_percent": "46.000000", "replicon_count": "0", "scaffold_count": "37", "contig_count": "37", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003144035.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3872", "protein_coding_gene_count": "3700", "non_coding_gene_count": "109", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-05-20", "dateModified": "2018-05-20", "datePublished": "2018-05-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio albus" ], "sample_taxid": [ "2200953" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Weihai" ], "sample_host_location_id": [], "data_size": "1.217 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4265296", "Number of Sequences": "37", "Longest Sequences (bp)": "804205", "N50 (bp)": "353509", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "46.1", "Number of CDSs": "3766", "Average Protein Length": "328.5", "Coding Ratio (%)": "87.0", "Number of rRNAs": "2", "Number of tRNAs": "84", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio albus", "strain": "strain=E4404", "accession": "GCA_003144035.1", "taxid": 2200953, "species_taxid": 2200953, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1399, "total_fragments": 1403, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio penaeicida", "strain": "strain=CAIM 285", "accession": "GCA_003970425.1", "taxid": 104609, "species_taxid": 104609, "relation_to_type": "type", "validated": true, "ani": 79.4802, "matched_fragments": 164, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio penaeicida", "strain": "strain=IFO 15640", "accession": "GCA_019977755.1", "taxid": 104609, "species_taxid": 104609, "relation_to_type": "type", "validated": true, "ani": 79.4561, "matched_fragments": 174, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio nigripulchritudo", "strain": "strain=ATCC 27043", "accession": "GCA_000222685.2", "taxid": 28173, "species_taxid": 28173, "relation_to_type": "type", "validated": true, "ani": 79.3497, "matched_fragments": 198, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio vulnificus", "strain": "strain=ATCC 27562", "accession": "GCA_002224265.1", "taxid": 672, "species_taxid": 672, "relation_to_type": "type", "validated": true, "ani": 79.0974, "matched_fragments": 190, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio parahaemolyticus", "strain": "strain=NCTC10903", "accession": "GCA_900460535.1", "taxid": 670, "species_taxid": 670, "relation_to_type": "type", "validated": true, "ani": 79.06, "matched_fragments": 204, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=FDAARGOS_777", "accession": "GCA_006364355.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 79.0591, "matched_fragments": 195, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio vulnificus", "strain": "strain=NCTC13647", "accession": "GCA_900460565.1", "taxid": 672, "species_taxid": 672, "relation_to_type": "type", "validated": true, "ani": 78.9974, "matched_fragments": 195, "total_fragments": 1403, "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": 78.9942, "matched_fragments": 217, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=PartQ-Vfurnissii-RM8376", "accession": "GCA_022869905.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 78.9535, "matched_fragments": 198, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio coralliilyticus", "strain": "strain=ATCC BAA-450", "accession": "GCA_000176135.1", "taxid": 190893, "species_taxid": 190893, "relation_to_type": "type", "validated": true, "ani": 78.9141, "matched_fragments": 194, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio parahaemolyticus", "strain": "strain=ATCC 17802", "accession": "GCA_001011015.1", "taxid": 670, "species_taxid": 670, "relation_to_type": "type", "validated": true, "ani": 78.8943, "matched_fragments": 203, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio barjaei", "strain": "strain=3062", "accession": "GCA_001639065.2", "taxid": 1676683, "species_taxid": 1676683, "relation_to_type": "type", "validated": true, "ani": 78.8873, "matched_fragments": 169, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio furnissii", "strain": "strain=NCTC13120", "accession": "GCA_900460225.1", "taxid": 29494, "species_taxid": 29494, "relation_to_type": "type", "validated": true, "ani": 78.8711, "matched_fragments": 194, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio ichthyoenteri", "strain": "strain=ATCC 700023", "accession": "GCA_000222605.2", "taxid": 142461, "species_taxid": 142461, "relation_to_type": "type", "validated": true, "ani": 78.8255, "matched_fragments": 171, "total_fragments": 1403, "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": 78.8155, "matched_fragments": 164, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio parahaemolyticus", "strain": "strain=NBRC 12711", "accession": "GCA_000813305.1", "taxid": 670, "species_taxid": 670, "relation_to_type": "type", "validated": true, "ani": 78.8091, "matched_fragments": 199, "total_fragments": 1403, "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": 78.7923, "matched_fragments": 187, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio vulnificus", "strain": "strain=NBRC 15645", "accession": "GCA_001591065.1", "taxid": 672, "species_taxid": 672, "relation_to_type": "type", "validated": true, "ani": 78.7579, "matched_fragments": 188, "total_fragments": 1403, "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": 78.6188, "matched_fragments": 175, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium proteolyticum", "strain": "strain=13-12", "accession": "GCA_001939735.1", "taxid": 1903952, "species_taxid": 1903952, "relation_to_type": "type", "validated": true, "ani": 78.5543, "matched_fragments": 151, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium alginatilyticum", "strain": "strain=P03D4", "accession": "GCA_009910675.1", "taxid": 1775171, "species_taxid": 1775171, "relation_to_type": "type", "validated": true, "ani": 78.4126, "matched_fragments": 155, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio rhizosphaerae", "strain": "strain=LMG 23790", "accession": "GCA_024347095.1", "taxid": 398736, "species_taxid": 398736, "relation_to_type": "type", "validated": true, "ani": 78.1209, "matched_fragments": 156, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium ganghwense", "strain": "strain=JCM 12487", "accession": "GCA_003025595.1", "taxid": 320778, "species_taxid": 320778, "relation_to_type": "type", "validated": true, "ani": 78.1203, "matched_fragments": 180, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium ganghwense", "strain": "strain=DSM 22954", "accession": "GCA_001029455.1", "taxid": 320778, "species_taxid": 320778, "relation_to_type": "type", "validated": true, "ani": 77.9922, "matched_fragments": 173, "total_fragments": 1403, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003144035.1", "gtdb_species": "s__Vibrio sp003144035", "ani": 100.0, "matched_fragments": 1399, "total_fragments": 1403, "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_002812955.1", "gtdb_species": "s__Vibrio sp002812955", "ani": 81.2394, "matched_fragments": 621, "total_fragments": 1403, "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_003970425.1", "gtdb_species": "s__Vibrio penaeicida", "ani": 79.4703, "matched_fragments": 164, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.14", "min_intra_species_ani": "96.14", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000222685.1", "gtdb_species": "s__Vibrio nigripulchritudo", "ani": 79.3497, "matched_fragments": 198, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.90", "min_intra_species_ani": "96.77", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCF_002224265.1", "gtdb_species": "s__Vibrio vulnificus", "ani": 79.0756, "matched_fragments": 190, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.11", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 225, "status": "-" }, { "accession": "GCF_009811315.1", "gtdb_species": "s__Vibrio atypicus", "ani": 79.046, "matched_fragments": 181, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "97.15", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900460245.1", "gtdb_species": "s__Vibrio fluvialis", "ani": 79.0101, "matched_fragments": 237, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.04", "min_intra_species_ani": "97.07", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 63, "status": "-" }, { "accession": "GCF_001591105.1", "gtdb_species": "s__Vibrio nereis", "ani": 78.982, "matched_fragments": 192, "total_fragments": 1403, "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": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009938165.1", "gtdb_species": "s__Vibrio taketomensis", "ani": 78.9739, "matched_fragments": 181, "total_fragments": 1403, "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": "-" }, { 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"matched_fragments": 169, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.1582, "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_000222605.1", "gtdb_species": "s__Vibrio ichthyoenteri", "ani": 78.8143, "matched_fragments": 172, "total_fragments": 1403, "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_000176175.1", "gtdb_species": "s__Vibrio furnissii", "ani": 78.8139, "matched_fragments": 185, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.58", "min_intra_species_ani": "97.97", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCF_000467125.1", "gtdb_species": "s__Vibrio proteolyticus", "ani": 78.7672, "matched_fragments": 223, "total_fragments": 1403, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Vibrionaceae;g__Vibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.93", "min_intra_species_ani": "98.89", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001939735.1", "gtdb_species": "s__Photobacterium proteolyticum", "ani": 78.5887, "matched_fragments": 147, "total_fragments": 1403, "gtdb_taxonomy": 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