{ "type": "genome", "identifier": "GCF_001399455.2", "organism": "Vibrio bivalvicida", "title": "Vibrio bivalvicida", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Santiago de Compostela", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001399455.2", "bioproject": "PRJNA224116", "biosample": "SAMN04145357", "wgs_master": "LLEI00000000.2", "refseq_category": "reference genome", "taxid": "1276888", "species_taxid": "1276888", "organism_name": "Vibrio bivalvicida", "infraspecific_name": "strain=605", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/17", "asm_name": "ASM139945v2", "asm_submitter": "University of Santiago de Compostela", "gbrs_paired_asm": "GCA_001399455.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/399/455/GCF_001399455.2_ASM139945v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4922047", "genome_size_ungapped": "4921769", "gc_percent": "44.500000", "replicon_count": "0", "scaffold_count": "91", "contig_count": "91", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001399455.2-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "4530", "protein_coding_gene_count": "4416", "non_coding_gene_count": "83", "pubmed_id": "26654527" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-17", "dateModified": "2016-05-17", "datePublished": "2016-05-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio bivalvicida" ], "sample_taxid": [ "1276888" ], "sample_host_organism": [ "Ruditapes decussatus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain: Galicia" ], "sample_host_location_id": [], "data_size": "1.408 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)": "4922047", "Number of Sequences": "91", "Longest Sequences (bp)": "691504", "N50 (bp)": "191755", "Gap Ratio (%)": "0.005648", "GCcontent (%)": "44.3", "Number of CDSs": "4412", "Average Protein Length": "323.7", "Coding Ratio (%)": "87.0", "Number of rRNAs": "4", "Number of tRNAs": "72", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio bivalvicida", "strain": "strain=605", "accession": "GCA_001399455.2", "taxid": 1276888, "species_taxid": 1276888, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio orientalis", "strain": "strain=CIP 102891", "accession": "GCA_000176235.1", "taxid": 28175, "species_taxid": 28175, "relation_to_type": "type", "validated": true, "ani": 82.2455, "matched_fragments": 790, "total_fragments": 1599, "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": 82.1457, "matched_fragments": 775, "total_fragments": 1599, "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": 81.9475, "matched_fragments": 726, "total_fragments": 1599, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": 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