{ "type": "genome", "identifier": "GCF_013410405.1", "organism": "Amycolatopsis endophytica", "title": "Amycolatopsis endophytica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013410405.1", "bioproject": "PRJNA224116", "biosample": "SAMN14908397", "wgs_master": "JACCFK000000000.1", "refseq_category": "reference genome", "taxid": "860233", "species_taxid": "860233", "organism_name": "Amycolatopsis endophytica", "infraspecific_name": "strain=DSM 104006", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/13", "asm_name": "ASM1341040v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_013410405.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/410/405/GCF_013410405.1_ASM1341040v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7197368", "genome_size_ungapped": "7197368", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013410405.1-RS_2024_09_29", "annotation_date": "2024-09-29", "total_gene_count": "7061", "protein_coding_gene_count": "6896", "non_coding_gene_count": "64", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-13", "dateModified": "2020-07-13", "datePublished": "2020-07-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis endophytica" ], "sample_taxid": [ "860233" ], "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": "1.924 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)": "7197368", "Number of Sequences": "2", "Longest Sequences (bp)": "5195615", "N50 (bp)": "5195615", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.8", "Number of CDSs": "7060", "Average Protein Length": "311.0", "Coding Ratio (%)": "91.5", "Number of rRNAs": "9", "Number of tRNAs": "67", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis endophytica", "strain": "strain=DSM 104006", "accession": "GCA_013410405.1", "taxid": 860233, "species_taxid": 860233, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2398, "total_fragments": 2398, "ani_threshold": 95, "status": "conclusive" }, { "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": 87.8906, "matched_fragments": 1637, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis thermoflava", "strain": "strain=N1165", "accession": "GCA_000473265.1", "taxid": 84480, "species_taxid": 84480, "relation_to_type": "type", "validated": true, "ani": 87.7956, "matched_fragments": 1792, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis methanolica", "strain": "strain=239", "accession": "GCA_000371885.1", "taxid": 1814, "species_taxid": 1814, "relation_to_type": "type", "validated": true, "ani": 87.6575, "matched_fragments": 1682, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis methanolica", "strain": "strain=239", "accession": "GCA_000739085.1", "taxid": 1814, "species_taxid": 1814, "relation_to_type": "type", "validated": true, "ani": 87.6461, "matched_fragments": 1685, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis granulosa", "strain": "strain=DSM 45669", "accession": "GCA_011758745.1", "taxid": 185684, "species_taxid": 185684, "relation_to_type": "type", "validated": true, "ani": 86.3297, "matched_fragments": 1449, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis acidiphila", "strain": "strain=KCTC 39523", "accession": "GCA_021391495.1", "taxid": 715473, "species_taxid": 715473, "relation_to_type": "type", "validated": true, "ani": 81.8553, "matched_fragments": 1336, "total_fragments": 2398, "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": 79.905, "matched_fragments": 1090, "total_fragments": 2398, "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": 79.8492, "matched_fragments": 1284, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella aidingensis", "strain": "strain=DSM 45266", "accession": "GCA_024171865.1", "taxid": 387890, "species_taxid": 387890, "relation_to_type": "type", "validated": true, "ani": 79.1596, "matched_fragments": 845, "total_fragments": 2398, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 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