{ "type": "genome", "identifier": "GCF_025996475.1", "organism": "Vibrio agarivorans", "title": "Vibrio agarivorans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Laboratory of Microbiology, Division of Marine Life Science, Faculty of Fisheries Sciences, Hokkaido University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025996475.1", "bioproject": "PRJNA224116", "biosample": "SAMD00191213", "wgs_master": "BLAT00000000.1", "refseq_category": "na", "taxid": "153622", "species_taxid": "153622", "organism_name": "Vibrio agarivorans", "infraspecific_name": "strain=CECT 5085", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/19", "asm_name": "ASM2599647v1", "asm_submitter": "Laboratory of Microbiology, Division of Marine Life Science, Faculty of Fisheries Sciences, Hokkaido University", "gbrs_paired_asm": "GCA_025996475.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/996/475/GCF_025996475.1_ASM2599647v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4708248", "genome_size_ungapped": "4677295", "gc_percent": "45.500000", "replicon_count": "0", "scaffold_count": "58", "contig_count": "58", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025996475.1-RS_2024_09_09", "annotation_date": "2024-09-09", "total_gene_count": "4285", "protein_coding_gene_count": "4085", "non_coding_gene_count": "132", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-19", "dateModified": "2022-10-19", "datePublished": "2022-10-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio agarivorans" ], "sample_taxid": [ "153622" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.335 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)": "4708248", "Number of Sequences": "58", "Longest Sequences (bp)": "1497920", "N50 (bp)": "891375", "Gap Ratio (%)": "0.657421", "GCcontent (%)": "45.4", "Number of CDSs": "4125", "Average Protein Length": "325.9", "Coding Ratio (%)": "85.7", "Number of rRNAs": "11", "Number of tRNAs": "101", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio tubiashii", "strain": "strain=ATCC 19109", "accession": "GCA_000772105.1", "taxid": 29498, 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"organism_name": "Vibrio pelagius", "strain": "strain=ATCC 25916", "accession": "GCA_024347575.1", "taxid": 28169, "species_taxid": 28169, "relation_to_type": "type", "validated": true, "ani": 80.0487, "matched_fragments": 343, "total_fragments": 1556, "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": 80.0416, "matched_fragments": 349, "total_fragments": 1556, "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": 80.0412, "matched_fragments": 343, "total_fragments": 1556, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio profundi", "strain": "strain=TP187", 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