{ "type": "genome", "identifier": "GCF_900111885.1", "organism": "Amycolatopsis marina", "title": "Amycolatopsis marina", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900111885.1", "bioproject": "PRJNA224116", "biosample": "SAMN05216266", "wgs_master": "FOKG00000000.1", "refseq_category": "reference genome", "taxid": "490629", "species_taxid": "490629", "organism_name": "Amycolatopsis marina", "infraspecific_name": "strain=CGMCC 4.3568", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/05", "asm_name": "IMG-taxon 2667527405 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900111885.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/111/885/GCF_900111885.1_IMG-taxon_2667527405_annotated_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": "7020699", "genome_size_ungapped": "7020594", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "59", "contig_count": "59", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900111885.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "6708", "protein_coding_gene_count": "6572", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-05", "dateModified": "2016-11-05", "datePublished": "2016-11-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis marina" ], "sample_taxid": [ "490629" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.920 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7020699", "Number of Sequences": "59", "Longest Sequences (bp)": "844488", "N50 (bp)": "305240", "Gap Ratio (%)": "0.001496", "GCcontent (%)": "68.2", "Number of CDSs": "6637", "Average Protein Length": "316.3", "Coding Ratio (%)": "89.7", "Number of rRNAs": "4", "Number of tRNAs": "58", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis marina", "strain": "strain=CGMCC 4.3568", "accession": "GCA_900111885.1", 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80.2328, "matched_fragments": 1080, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis nigrescens", "strain": "strain=CSC17Ta-90", "accession": "GCA_000384315.1", "taxid": 381445, "species_taxid": 381445, "relation_to_type": "type", "validated": true, "ani": 79.957, "matched_fragments": 1065, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis suaedae", "strain": "strain=8-3EHSu", "accession": "GCA_004214935.1", "taxid": 2510978, "species_taxid": 2510978, "relation_to_type": "type", "validated": true, "ani": 79.7805, "matched_fragments": 964, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis anabasis", "strain": "strain=EGI 650086", "accession": "GCA_009765355.1", "taxid": 1840409, "species_taxid": 1840409, "relation_to_type": "type", "validated": true, "ani": 79.7734, "matched_fragments": 1042, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis magusensis", "strain": "strain=DSM 45510", "accession": "GCA_017875555.1", "taxid": 882444, "species_taxid": 882444, "relation_to_type": "type", "validated": true, "ani": 79.7047, "matched_fragments": 1058, "total_fragments": 2310, "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": 79.5771, "matched_fragments": 946, "total_fragments": 2310, "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": 79.4379, "matched_fragments": 928, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis regifaucium", "strain": "strain=GY080", "accession": "GCA_001558125.2", "taxid": 546365, "species_taxid": 546365, "relation_to_type": "type", "validated": true, "ani": 79.1919, "matched_fragments": 873, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis sacchari", "strain": "strain=DSM 44468", "accession": "GCA_900114035.1", "taxid": 115433, "species_taxid": 115433, "relation_to_type": "type", "validated": true, "ani": 79.1825, "matched_fragments": 862, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis regifaucium", "strain": "strain=DSM 45072", "accession": "GCA_900113515.1", "taxid": 546365, "species_taxid": 546365, "relation_to_type": "type", "validated": true, "ani": 79.1729, "matched_fragments": 875, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis regifaucium", "strain": "strain=GY080", "accession": "GCA_001613935.1", "taxid": 546365, "species_taxid": 546365, "relation_to_type": "type", "validated": true, "ani": 79.1489, "matched_fragments": 879, "total_fragments": 2310, "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": 79.0725, "matched_fragments": 995, "total_fragments": 2310, "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": 78.2809, "matched_fragments": 615, "total_fragments": 2310, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, 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