{ "type": "genome", "identifier": "GCF_002938425.1", "organism": "Blastococcus atacamensis", "title": "Blastococcus atacamensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Northumbria University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002938425.1", "bioproject": "PRJNA224116", "biosample": "SAMN08335873", "wgs_master": "POQU00000000.1", "refseq_category": "reference genome", "taxid": "2070508", "species_taxid": "2070508", "organism_name": "Blastococcus atacamensis", "infraspecific_name": "strain=P6", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/02/22", "asm_name": "ASM293842v1", "asm_submitter": "Northumbria University", "gbrs_paired_asm": "GCA_002938425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/938/425/GCF_002938425.1_ASM293842v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3893821", "genome_size_ungapped": "3893821", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "163", "contig_count": "163", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002938425.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "3875", "protein_coding_gene_count": "3763", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-02-22", "dateModified": "2018-02-22", "datePublished": "2018-02-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Blastococcus atacamensis" ], "sample_taxid": [ "2070508" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Chile" ], "sample_host_location_id": [], "data_size": "1.034 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.39, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3893821", "Number of Sequences": "163", "Longest Sequences (bp)": "122207", "N50 (bp)": "37855", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.1", "Number of CDSs": "3748", "Average Protein Length": "306.1", "Coding Ratio (%)": "88.4", "Number of rRNAs": "5", "Number of tRNAs": "64", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Blastococcus atacamensis", "strain": "strain=P6", "accession": "GCA_002938425.1", "taxid": 2070508, "species_taxid": 2070508, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1206, "total_fragments": 1214, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Blastococcus saxobsidens", "strain": "strain=DSM 44509", "accession": "GCA_002938435.1", "taxid": 138336, "species_taxid": 138336, "relation_to_type": "type", "validated": true, "ani": 85.8532, "matched_fragments": 926, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastococcus saxobsidens", "strain": "strain=DSM 44509", "accession": "GCA_004217455.1", "taxid": 138336, "species_taxid": 138336, "relation_to_type": "type", "validated": true, "ani": 85.8132, "matched_fragments": 940, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastococcus xanthinilyticus", "strain": "strain=DSM 46842", "accession": "GCA_008124835.1", "taxid": 1564164, "species_taxid": 1564164, "relation_to_type": "type", "validated": true, "ani": 84.7369, "matched_fragments": 916, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastococcus aggregatus", "strain": "strain=DSM 4725", "accession": "GCA_900221005.1", "taxid": 38502, "species_taxid": 38502, "relation_to_type": "type", "validated": true, "ani": 83.7796, "matched_fragments": 833, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blastococcus litoris", "strain": "strain=GP-S2-8", "accession": "GCA_003075095.1", "taxid": 2171622, "species_taxid": 2171622, "relation_to_type": "type", "validated": true, "ani": 83.7774, "matched_fragments": 882, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus tzadiensis", "strain": "strain=DSM 45416", "accession": "GCA_003002915.1", "taxid": 1137988, "species_taxid": 1137988, "relation_to_type": "type", "validated": true, "ani": 82.9481, "matched_fragments": 827, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus telluris", "strain": "strain=DSM 45421", "accession": "GCA_900102745.1", "taxid": 1190417, "species_taxid": 1190417, "relation_to_type": "type", "validated": true, "ani": 82.8277, "matched_fragments": 837, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus nigrescens", "strain": "strain=DSM 45408", "accession": "GCA_900129495.1", "taxid": 1070870, "species_taxid": 1070870, "relation_to_type": "type", "validated": true, "ani": 82.8058, "matched_fragments": 863, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geodermatophilus normandii", "strain": "strain=DSM 45417", "accession": "GCA_003182485.1", "taxid": 1137989, "species_taxid": 1137989, "relation_to_type": "type", "validated": true, "ani": 82.7441, "matched_fragments": 841, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klenkia taihuensis", "strain": "strain=DSM 45962", "accession": "GCA_900112525.1", "taxid": 1225127, "species_taxid": 1225127, "relation_to_type": "type", "validated": true, "ani": 81.5773, "matched_fragments": 735, "total_fragments": 1214, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.39, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002938425.1", "gtdb_species": "s__Blastococcus atacamensis", "ani": 100.0, "matched_fragments": 1206, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_003319095.1", "gtdb_species": "s__Blastococcus sp003319095", "ani": 89.0983, "matched_fragments": 973, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_004571075.1", "gtdb_species": "s__Blastococcus sp004571075", "ani": 87.7731, "matched_fragments": 919, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_003319175.1", "gtdb_species": "s__Blastococcus sp003319175", "ani": 86.612, "matched_fragments": 931, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_010682065.1", "gtdb_species": "s__Blastococcus saxobsidens_B", "ani": 86.0712, "matched_fragments": 861, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_002938435.1", "gtdb_species": "s__Blastococcus saxobsidens", "ani": 85.8417, "matched_fragments": 927, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_008124835.1", "gtdb_species": "s__Blastococcus xanthinilyticus", "ani": 84.7145, "matched_fragments": 918, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_003319185.1", "gtdb_species": "s__Blastococcus sp003319185", "ani": 84.3678, "matched_fragments": 855, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_016612865.1", "gtdb_species": "s__Blastococcus sp016612865", "ani": 83.8333, "matched_fragments": 830, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003319105.1", "gtdb_species": "s__Blastococcus sp003319105", "ani": 83.8001, "matched_fragments": 816, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_000582785.1", "gtdb_species": "s__Blastococcus massiliensis", "ani": 83.5613, "matched_fragments": 786, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Blastococcus", "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_003182485.1", "gtdb_species": "s__Geodermatophilus normandii", "ani": 82.7647, "matched_fragments": 839, "total_fragments": 1214, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Geodermatophilaceae;g__Geodermatophilus", "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": -0.197, "cell_length": -0.134, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 32.0, "optimum_ph": 6.9, "genome_size": 4790290.0, "gc_content": 72.9, "coding_genes": 4590.333, "rRNA16S_genes": 3.0, "tRNA_genes": 47.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Blastococcus", "atacamensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }