{ "type": "genome", "identifier": "GCF_000400425.1", "organism": "Vibrio sagamiensis NBRC 104589", "title": "Vibrio sagamiensis NBRC 104589", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Miyazaki", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000400425.1", "bioproject": "PRJNA224116", "biosample": "SAMD00036663", "wgs_master": "BAOJ00000000.1", "refseq_category": "na", "taxid": "1219064", "species_taxid": "512650", "organism_name": "Vibrio sagamiensis NBRC 104589", "infraspecific_name": "strain=NBRC 104589", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/05/15", "asm_name": "ASM40042v1", "asm_submitter": "University of Miyazaki", "gbrs_paired_asm": "GCA_000400425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/400/425/GCF_000400425.1_ASM40042v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4557580", "genome_size_ungapped": "4557570", "gc_percent": "40.500000", "replicon_count": "0", "scaffold_count": "504", "contig_count": "504", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000400425.1-RS_2024_09_09", "annotation_date": "2024-09-09", "total_gene_count": "4138", "protein_coding_gene_count": "3944", "non_coding_gene_count": "42", "pubmed_id": "23710045" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-05-15", "dateModified": "2013-05-15", "datePublished": "2013-05-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Vibrio sagamiensis NBRC 104589" ], "sample_taxid": [ "1219064" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.306 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)": "4534101", "Number of Sequences": "362", "Longest Sequences (bp)": "226530", "N50 (bp)": "50295", "Gap Ratio (%)": "0.000221", "GCcontent (%)": "40.7", "Number of CDSs": "3888", "Average Protein Length": "316.1", "Coding Ratio (%)": "81.3", "Number of rRNAs": "0", "Number of tRNAs": "23", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Vibrio sagamiensis", "strain": "strain=NBRC 104589", "accession": "GCA_000400425.1", "taxid": 512650, "species_taxid": 512650, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1379, "total_fragments": 1385, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio sagamiensis", "strain": "strain=NBRC 104589", "accession": "GCA_007990935.1", "taxid": 512650, "species_taxid": 512650, "relation_to_type": "type", "validated": true, "ani": 99.9885, "matched_fragments": 1351, "total_fragments": 1385, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vibrio azureus", "strain": "strain=NBRC 104587", "accession": "GCA_000400265.1", "taxid": 512649, "species_taxid": 512649, "relation_to_type": "type", "validated": true, "ani": 91.38, "matched_fragments": 1029, "total_fragments": 1385, "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": 91.1829, "matched_fragments": 1102, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio 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1381081, "species_taxid": 1381081, "relation_to_type": "type", "validated": true, "ani": 79.454, "matched_fragments": 250, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio crassostreae", "strain": "strain=LMG 22240", "accession": "GCA_024347415.1", "taxid": 246167, "species_taxid": 246167, "relation_to_type": "type", "validated": true, "ani": 79.2803, "matched_fragments": 265, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio chagasii", "strain": "strain=LMG 21353", "accession": "GCA_024347355.1", "taxid": 170679, "species_taxid": 170679, "relation_to_type": "suspected-type", "validated": true, "ani": 79.161, "matched_fragments": 280, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007990935.1", "gtdb_species": "s__Vibrio 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