{ "type": "genome", "identifier": "GCF_007991175.1", "organism": "Halovibrio variabilis", "title": "Halovibrio variabilis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007991175.1", "bioproject": "PRJNA224116", "biosample": "SAMD00169747", "wgs_master": "BJXV00000000.1", "refseq_category": "reference genome", "taxid": "31910", "species_taxid": "31910", "organism_name": "Halovibrio variabilis", "infraspecific_name": "strain=NBRC 102410", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/31", "asm_name": "ASM799117v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_007991175.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/991/175/GCF_007991175.1_ASM799117v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3729154", "genome_size_ungapped": "3729154", "gc_percent": "56.000000", "replicon_count": "0", "scaffold_count": "48", "contig_count": "48", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007991175.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "3484", "protein_coding_gene_count": "3387", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-31", "dateModified": "2019-07-31", "datePublished": "2019-07-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Halovibrio variabilis" ], "sample_taxid": [ "31910" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:Utah, Great Salt Lake" ], "sample_host_location_id": [], "data_size": "1.062 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)": "3729154", "Number of Sequences": "48", "Longest Sequences (bp)": "454653", "N50 (bp)": "189520", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.8", "Number of CDSs": "3408", "Average Protein Length": "322.6", "Coding Ratio (%)": "88.5", "Number of rRNAs": "2", "Number of tRNAs": "50", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halomonas boliviensis", "strain": "strain=LC1", "accession": "GCA_002265845.1", "taxid": 223527, "species_taxid": 223527, 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"matched_fragments": 900, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas glaciei", "strain": "strain=DD39", "accession": "GCA_013415125.1", "taxid": 186761, "species_taxid": 186761, "relation_to_type": "type", "validated": true, "ani": 82.827, "matched_fragments": 821, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas maris", "strain": "strain=QX-1", "accession": "GCA_013371085.1", "taxid": 2729617, "species_taxid": 2729617, "relation_to_type": "type", "validated": true, "ani": 82.329, "matched_fragments": 806, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas profundi", "strain": "strain=MT13", "accession": "GCA_019504685.1", "taxid": 2852117, "species_taxid": 2852117, "relation_to_type": "type", "validated": true, "ani": 80.7614, "matched_fragments": 642, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas profundi", "strain": "strain=MT13", "accession": "GCA_019722725.1", "taxid": 2852117, "species_taxid": 2852117, "relation_to_type": "type", "validated": true, "ani": 80.7552, "matched_fragments": 665, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas populi", "strain": "strain=MC", "accession": "GCA_003989825.1", "taxid": 2498858, "species_taxid": 2498858, "relation_to_type": "type", "validated": true, "ani": 79.442, "matched_fragments": 454, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidoxydans", "strain": "strain=MCCC 1A11059", "accession": "GCA_017868775.1", "taxid": 2733484, "species_taxid": 2733484, "relation_to_type": "type", "validated": true, "ani": 77.7716, "matched_fragments": 260, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lysinitropha", "strain": "strain=3(2)", "accession": "GCA_902500215.1", "taxid": 2607506, "species_taxid": 2607506, "relation_to_type": "type", "validated": true, "ani": 77.728, "matched_fragments": 211, "total_fragments": 1220, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007991175.1", "gtdb_species": "s__Halomonas variabilis", "ani": 100.0, "matched_fragments": 1218, "total_fragments": 1220, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_002257525.1", "gtdb_species": "s__Halomonas ventosae_B", "ani": 83.8177, "matched_fragments": 938, "total_fragments": 1220, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "97.92", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000236035.1", "gtdb_species": "s__Halomonas boliviensis", "ani": 83.5983, "matched_fragments": 916, "total_fragments": 1220, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001882345.1", "gtdb_species": "s__Halomonas sp001882345", "ani": 83.535, "matched_fragments": 913, "total_fragments": 1220, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_002211105.1", "gtdb_species": "s__Halomonas campaniensis_A", "ani": 83.4304, "matched_fragments": 873, "total_fragments": 1220, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000336575.1", "gtdb_species": "s__Halomonas titanicae", "ani": 83.4156, "matched_fragments": 928, "total_fragments": 1220, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Halovibrio", "variabilis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }