{ "type": "genome", "identifier": "GCF_000336995.1", "organism": "Halorubrum aidingense JCM 13560", "title": "Halorubrum aidingense JCM 13560", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of California, Davis", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000336995.1", "bioproject": "PRJNA224116", "biosample": "SAMN02471664", "wgs_master": "AOJI00000000.1", "refseq_category": "reference genome", "taxid": "1230454", "species_taxid": "368623", "organism_name": "Halorubrum aidingense JCM 13560", "infraspecific_name": "strain=JCM 13560", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/02/04", "asm_name": "ASM33699v1", "asm_submitter": "University of California, Davis", "gbrs_paired_asm": "GCA_000336995.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/336/995/GCF_000336995.1_ASM33699v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "archaea", "genome_size": "3108525", "genome_size_ungapped": "3108525", "gc_percent": "67.000000", "replicon_count": "0", "scaffold_count": "37", "contig_count": "37", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000336995.1-RS_2024_10_21", "annotation_date": "2024-10-21", "total_gene_count": "3124", "protein_coding_gene_count": "3011", "non_coding_gene_count": "64", "pubmed_id": "25393412" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-02-04", "dateModified": "2013-02-04", "datePublished": "2013-02-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Halorubrum aidingense JCM 13560" ], "sample_taxid": [ "1230454" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.842 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3108525", "Number of Sequences": "37", "Longest Sequences (bp)": "541396", "N50 (bp)": "208041", "Gap Ratio (%)": "0.002059", "GCcontent (%)": "67.2", "Number of CDSs": "3029", "Average Protein Length": "294.9", "Coding Ratio (%)": "86.2", "Number of rRNAs": "1", "Number of tRNAs": "56", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halorubrum aidingense", "strain": "strain=JCM 13560", "accession": "GCA_000336995.1", "taxid": 368623, "species_taxid": 368623, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1021, "total_fragments": 1022, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halorubrum depositum", "strain": "strain=Y78", "accession": "GCA_007671725.1", "taxid": 2583992, "species_taxid": 2583992, "relation_to_type": "type", "validated": true, "ani": 86.2883, "matched_fragments": 721, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum lipolyticum", "strain": "strain=DSM 21995", "accession": "GCA_000337375.1", "taxid": 368624, "species_taxid": 368624, "relation_to_type": "type", "validated": true, "ani": 86.2465, "matched_fragments": 750, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum salsamenti", "strain": "strain=Y69", "accession": "GCA_007671685.1", "taxid": 2583990, "species_taxid": 2583990, "relation_to_type": "type", "validated": true, "ani": 86.0081, "matched_fragments": 719, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum kocurii", "strain": "strain=JCM 14978", "accession": "GCA_000337355.1", "taxid": 478441, "species_taxid": 478441, "relation_to_type": "type", "validated": true, "ani": 85.9581, "matched_fragments": 720, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum salipaludis", "strain": "strain=WN019", "accession": "GCA_002286985.1", "taxid": 2032630, "species_taxid": 2032630, "relation_to_type": "type", "validated": true, "ani": 85.7678, "matched_fragments": 740, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum rutilum", "strain": "strain=YJ-18-S1", "accession": "GCA_024494565.1", "taxid": 1364933, "species_taxid": 1364933, "relation_to_type": "type", "validated": true, "ani": 85.7485, "matched_fragments": 701, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum persicum", "strain": "strain=C49", "accession": "GCA_002727125.1", "taxid": 1383844, "species_taxid": 1383844, "relation_to_type": "type", "validated": true, "ani": 85.7087, "matched_fragments": 678, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum halophilum", "strain": "strain=B8", "accession": "GCA_000739595.1", "taxid": 413816, "species_taxid": 413816, "relation_to_type": "type", "validated": true, "ani": 85.7036, "matched_fragments": 715, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum saccharovorum", "strain": "strain=DSM 1137", "accession": "GCA_000337915.1", "taxid": 2248, "species_taxid": 2248, "relation_to_type": "type", "validated": true, "ani": 85.6938, "matched_fragments": 697, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorubrum amylolyticum", "strain": "strain=ZC67", "accession": "GCA_004114995.1", "taxid": 2508724, "species_taxid": 2508724, "relation_to_type": "type", "validated": true, "ani": 85.68, "matched_fragments": 694, "total_fragments": 1022, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000336995.1", "gtdb_species": "s__Halorubrum aidingense", "ani": 100.0, "matched_fragments": 1021, "total_fragments": 1022, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halorubrum", "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_007671725.1", "gtdb_species": "s__Halorubrum depositum", "ani": 86.2498, "matched_fragments": 723, "total_fragments": 1022, 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