{ "type": "genome", "identifier": "GCF_000388135.1", "organism": "Amycolatopsis vancoresmycina DSM 44592", "title": "Amycolatopsis vancoresmycina DSM 44592", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Microbial Technology (IMTECH), Chandigarh, India 160036", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000388135.1", "bioproject": "PRJNA224116", "biosample": "SAMN02469982", "wgs_master": "AOUO00000000.1", "refseq_category": "na", "taxid": "1292037", "species_taxid": "208444", "organism_name": "Amycolatopsis vancoresmycina DSM 44592", "infraspecific_name": "strain=DSM 44592", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/05/03", "asm_name": "Whole genome assembly", "asm_submitter": "Institute of Microbial Technology (IMTECH), Chandigarh, India 160036", "gbrs_paired_asm": "GCA_000388135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/388/135/GCF_000388135.1_Whole_genome_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": "9036495", "genome_size_ungapped": "9036495", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "784", "contig_count": "784", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000388135.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "8874", "protein_coding_gene_count": "8289", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-05-03", "dateModified": "2013-05-03", "datePublished": "2013-05-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis vancoresmycina DSM 44592" ], "sample_taxid": [ "1292037" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "India" ], "sample_host_location_id": [], "data_size": "2.414 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 2.78, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9036495", "Number of Sequences": "784", "Longest Sequences (bp)": "87683", "N50 (bp)": "18444", "Gap Ratio (%)": "0.005777", "GCcontent (%)": "71.8", "Number of CDSs": "7821", "Average Protein Length": "309.8", "Coding Ratio (%)": "80.4", "Number of rRNAs": "1", "Number of tRNAs": "72", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis vancoresmycina", "strain": "strain=DSM 44592", "accession": "GCA_000388135.1", "taxid": 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"ani": 89.5722, "matched_fragments": 2027, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis eburnea", "strain": "strain=GLM-1", "accession": "GCA_003937945.1", "taxid": 2267691, "species_taxid": 2267691, "relation_to_type": "type", "validated": true, "ani": 89.302, "matched_fragments": 2084, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis lexingtonensis", "strain": "strain=NRRL B-24131", "accession": "GCA_002156005.1", "taxid": 218822, "species_taxid": 218822, "relation_to_type": "type", "validated": true, "ani": 89.1424, "matched_fragments": 1913, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis pretoriensis", "strain": "strain=DSM 44654", "accession": "GCA_900107925.1", "taxid": 218821, "species_taxid": 218821, "relation_to_type": "type", "validated": true, "ani": 89.136, "matched_fragments": 2058, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis pretoriensis", "strain": "strain=NRRL B-24133", "accession": "GCA_002156025.1", "taxid": 218821, "species_taxid": 218821, "relation_to_type": "type", "validated": true, "ani": 88.9236, "matched_fragments": 1918, "total_fragments": 2625, "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": 88.7335, "matched_fragments": 2113, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis thermalba", "strain": "strain=NRRL B-24845", "accession": "GCA_003385215.1", "taxid": 944492, "species_taxid": 944492, "relation_to_type": "type", "validated": true, "ani": 80.2981, "matched_fragments": 1128, "total_fragments": 2625, "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": 79.1561, "matched_fragments": 978, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora globicatena", "strain": "strain=DSM 44256", "accession": "GCA_024171945.1", "taxid": 103729, "species_taxid": 103729, "relation_to_type": "type", "validated": true, "ani": 78.2361, "matched_fragments": 874, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium matsuzakiense", "strain": "strain=NRRL B-16293", "accession": "GCA_025264725.1", "taxid": 53360, "species_taxid": 53360, "relation_to_type": "type", "validated": true, "ani": 76.1694, "matched_fragments": 897, "total_fragments": 2625, "ani_threshold": 95, "status": "below_threshold" } ], 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_014654205.1", "gtdb_species": "s__Amycolatopsis bullii", "ani": 90.8126, "matched_fragments": 2050, "total_fragments": 2625, "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": "-" }, { "accession": "GCF_002904335.1", "gtdb_species": "s__Amycolatopsis sp002904335", "ani": 90.7034, "matched_fragments": 2123, "total_fragments": 2625, "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": 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