{ "type": "genome", "identifier": "GCF_021654135.1", "organism": "Amycolatopsis tucumanensis", "title": "Amycolatopsis tucumanensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "PROIMI", "publication": [ {} ], "properties": { "assembly_accession": "GCF_021654135.1", "bioproject": "PRJNA224116", "biosample": "SAMN25064622", "wgs_master": "JAKGSD000000000.1", "refseq_category": "reference genome", "taxid": "401106", "species_taxid": "401106", "organism_name": "Amycolatopsis tucumanensis", "infraspecific_name": "strain=ABO", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/01/28", "asm_name": "ASM2165413v1", "asm_submitter": "PROIMI", "gbrs_paired_asm": "GCA_021654135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/021/654/135/GCF_021654135.1_ASM2165413v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9017186", "genome_size_ungapped": "9013433", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "148", "contig_count": "148", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_021654135.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "8882", "protein_coding_gene_count": "8707", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-01-28", "dateModified": "2022-01-28", "datePublished": "2022-01-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis tucumanensis" ], "sample_taxid": [ "401106" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Argentina" ], "sample_host_location_id": [], "data_size": "2.413 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)": "9017186", "Number of Sequences": "148", "Longest Sequences (bp)": "756978", "N50 (bp)": "124475", "Gap Ratio (%)": "0.041621", "GCcontent (%)": "71.7", "Number of CDSs": "8911", "Average Protein Length": "305.0", "Coding Ratio (%)": "90.4", "Number of rRNAs": "2", "Number of tRNAs": "81", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis thermoflava", "strain": "strain=N1165", "accession": "GCA_000473265.1", "taxid": 84480, "species_taxid": 84480, "relation_to_type": "type", "validated": true, "ani": 95.6614, "matched_fragments": 2400, "total_fragments": 2933, "ani_threshold": 95, 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"accession": "GCA_021391495.1", "taxid": 715473, "species_taxid": 715473, "relation_to_type": "type", "validated": true, "ani": 82.0595, "matched_fragments": 1487, "total_fragments": 2933, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis camponoti", "strain": "strain=A23", "accession": "GCA_902497555.1", "taxid": 2606593, "species_taxid": 2606593, "relation_to_type": "type", "validated": true, "ani": 79.9729, "matched_fragments": 1465, "total_fragments": 2933, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella cavernicola", "strain": "strain=ASG 168", "accession": "GCA_016595675.1", "taxid": 2800127, "species_taxid": 2800127, "relation_to_type": "type", "validated": true, "ani": 79.8247, "matched_fragments": 1170, "total_fragments": 2933, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis aidingensis", "strain": "strain=YIM 96748", "accession": "GCA_018885265.1", "taxid": 2842453, 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"d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.72", "min_intra_species_ani": "99.30", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_014653945.1", "gtdb_species": "s__Amycolatopsis deserti", "ani": 91.7891, "matched_fragments": 2123, "total_fragments": 2933, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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": -0.304, "cell_length": 0.239, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 29.166, "optimum_ph": 7.391, "genome_size": 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