{ "type": "genome", "identifier": "GCF_900100355.1", "organism": "Microbulbifer yueqingensis", "title": "Microbulbifer yueqingensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900100355.1", "bioproject": "PRJNA224116", "biosample": "SAMN05216212", "wgs_master": "FNFH00000000.1", "refseq_category": "reference genome", "taxid": "658219", "species_taxid": "658219", "organism_name": "Microbulbifer yueqingensis", "infraspecific_name": "strain=CGMCC 1.10658", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/21", "asm_name": "IMG-taxon 2667528184 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900100355.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/100/355/GCF_900100355.1_IMG-taxon_2667528184_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3664854", "genome_size_ungapped": "3664581", "gc_percent": "62.000000", "replicon_count": "0", "scaffold_count": "14", "contig_count": "14", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900100355.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3258", "protein_coding_gene_count": "3190", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-21", "dateModified": "2016-10-21", "datePublished": "2016-10-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Microbulbifer yueqingensis" ], "sample_taxid": [ "658219" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.032 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)": "3664854", "Number of Sequences": "14", "Longest Sequences (bp)": "881492", "N50 (bp)": "752090", "Gap Ratio (%)": "0.007449", "GCcontent (%)": "62.0", "Number of CDSs": "3229", "Average Protein Length": "331.0", "Coding Ratio (%)": "87.5", "Number of rRNAs": "4", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Microbulbifer yueqingensis", "strain": "strain=CGMCC 1.10658", "accession": "GCA_900100355.1", 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"below_threshold" }, { "organism_name": "Thiohalobacter thiocyanaticus", "strain": "strain=Hrh1", "accession": "GCA_003932505.1", "taxid": 585455, "species_taxid": 585455, "relation_to_type": "type", "validated": true, "ani": 76.6313, "matched_fragments": 120, "total_fragments": 1212, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900100355.1", "gtdb_species": "s__Microbulbifer yueqingensis", "ani": 100.0, "matched_fragments": 1210, "total_fragments": 1212, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_014904815.1", "gtdb_species": 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80.0853, "matched_fragments": 618, "total_fragments": 1212, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014191725.1", "gtdb_species": "s__Microbulbifer rhizosphaerae", "ani": 79.9474, "matched_fragments": 650, "total_fragments": 1212, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Cellvibrionaceae;g__Microbulbifer", "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_001750105.1", "gtdb_species": "s__Microbulbifer aggregans", "ani": 79.8664, 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"coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Microbulbifer", "yueqingensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }