{ "type": "genome", "identifier": "GCF_900115005.1", "organism": "Pseudonocardia ammonioxydans", "title": "Pseudonocardia ammonioxydans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900115005.1", "bioproject": "PRJNA224116", "biosample": "SAMN05216207", "wgs_master": "FOUY00000000.1", "refseq_category": "reference genome", "taxid": "260086", "species_taxid": "260086", "organism_name": "Pseudonocardia ammonioxydans", "infraspecific_name": "strain=CGMCC 4.1877", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/05", "asm_name": "IMG-taxon 2671180038 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900115005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/115/005/GCF_900115005.1_IMG-taxon_2671180038_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": "7361511", "genome_size_ungapped": "7361501", "gc_percent": "73.500000", "replicon_count": "0", "scaffold_count": "167", "contig_count": "167", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900115005.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "7049", "protein_coding_gene_count": "6847", "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": [ "Pseudonocardia ammonioxydans" ], "sample_taxid": [ "260086" ], "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": "1.940 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)": "7361511", "Number of Sequences": "167", "Longest Sequences (bp)": "559002", "N50 (bp)": "152432", "Gap Ratio (%)": "0.000136", "GCcontent (%)": "73.5", "Number of CDSs": "6901", "Average Protein Length": "315.5", "Coding Ratio (%)": "88.7", "Number of rRNAs": "3", "Number of tRNAs": "73", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudonocardia ammonioxydans", "strain": "strain=CGMCC 4.1877", "accession": "GCA_900115005.1", "taxid": 260086, "species_taxid": 260086, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2365, "total_fragments": 2371, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudonocardia parietis", "strain": "strain=DSM 45256", "accession": "GCA_017876315.1", "taxid": 570936, "species_taxid": 570936, "relation_to_type": "type", "validated": true, "ani": 87.9291, "matched_fragments": 1814, "total_fragments": 2371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia autotrophica", "strain": "strain=DSM 535", "accession": "GCA_002119215.1", "taxid": 2074, "species_taxid": 2074, "relation_to_type": "suspected-type", "validated": true, "ani": 84.6513, "matched_fragments": 1489, "total_fragments": 2371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia autotrophica", "strain": "strain=NBRC 12743", "accession": "GCA_003945385.1", "taxid": 2074, 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