{ "type": "genome", "identifier": "GCF_004799665.1", "organism": "Halapricum salinum", "title": "Halapricum salinum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Wuhan University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004799665.1", "bioproject": "PRJNA224116", "biosample": "SAMN09711547", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1457250", "species_taxid": "1457250", "organism_name": "Halapricum salinum", "infraspecific_name": "strain=CBA1105", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/18", "asm_name": "ASM479966v1", "asm_submitter": "Wuhan University", "gbrs_paired_asm": "GCA_004799665.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/799/665/GCF_004799665.1_ASM479966v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "archaea", "genome_size": "3452056", "genome_size_ungapped": "3452056", "gc_percent": "63.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004799665.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3479", "protein_coding_gene_count": "3390", "non_coding_gene_count": "50", "pubmed_id": "30975999" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-18", "dateModified": "2019-04-18", "datePublished": "2019-04-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Halapricum salinum" ], "sample_taxid": [ "1457250" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "0.950 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3452056", "Number of Sequences": "1", "Longest Sequences (bp)": "3452056", "N50 (bp)": "3452056", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.7", "Number of CDSs": "3410", "Average Protein Length": "300.7", "Coding Ratio (%)": "89.1", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halapricum salinum", "strain": "strain=CBA1105", "accession": "GCA_004799665.1", "taxid": 1457250, "species_taxid": 1457250, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1150, "total_fragments": 1150, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halapricum salinum", "strain": "strain=CBA1105", "accession": "GCA_000755225.1", "taxid": 1457250, "species_taxid": 1457250, "relation_to_type": "type", "validated": true, "ani": 99.9939, "matched_fragments": 1149, "total_fragments": 1150, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Halapricum desulfuricans", "strain": "strain=HSR12-2", "accession": "GCA_017094525.1", "taxid": 2841257, "species_taxid": 2841257, "relation_to_type": "type", "validated": true, "ani": 80.3283, "matched_fragments": 515, "total_fragments": 1150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorhabdus tiamatea", "strain": "strain=SARL4B", "accession": "GCA_000215915.3", "taxid": 430914, "species_taxid": 430914, "relation_to_type": "type", "validated": true, "ani": 78.3787, "matched_fragments": 331, "total_fragments": 1150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorientalis pallida", "strain": "strain=F13-25", "accession": "GCA_004118325.1", "taxid": 2479928, "species_taxid": 2479928, "relation_to_type": "type", "validated": true, "ani": 78.3444, "matched_fragments": 391, "total_fragments": 1150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halorhabdus tiamatea", "strain": "strain=type strain: SARL4B", "accession": "GCA_000470655.1", "taxid": 430914, "species_taxid": 430914, "relation_to_type": "type", "validated": true, "ani": 78.3427, "matched_fragments": 345, "total_fragments": 1150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halosimplex halophilum", "strain": "strain=TH32", "accession": "GCA_004698125.1", "taxid": 2559572, "species_taxid": 2559572, "relation_to_type": "type", "validated": true, "ani": 78.3018, "matched_fragments": 455, "total_fragments": 1150, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004799665.1", "gtdb_species": "s__Halapricum salinum", "ani": 100.0, "matched_fragments": 1150, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halapricum", "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": "conclusive" }, { "accession": "GCA_017094505.1", "gtdb_species": "s__Halapricum sp017094505", "ani": 80.4071, "matched_fragments": 535, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halapricum", "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": "GCA_017094525.1", "gtdb_species": "s__Halapricum sp017094525", "ani": 80.3507, "matched_fragments": 514, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halapricum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017094465.1", "gtdb_species": "s__Halapricum sp017094465", "ani": 80.2625, "matched_fragments": 539, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halapricum", "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_000470655.1", "gtdb_species": "s__Halorhabdus tiamatea", "ani": 78.3432, "matched_fragments": 345, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halorhabdus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004698125.1", "gtdb_species": "s__Halosimplex halophilum", "ani": 78.2872, "matched_fragments": 456, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halosimplex", "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": "GCA_003021655.1", "gtdb_species": "s__QS-4-69-31 sp003021655", "ani": 78.1593, "matched_fragments": 330, "total_fragments": 1150, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__QS-4-69-31", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.222, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 3451492.0, "gc_content": 63.7, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": null, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Halapricum", "salinum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }