{ "type": "genome", "identifier": "GCF_900215645.1", "organism": "Rathayibacter rathayi NCPPB 2980 = VKM Ac-1601", "title": "Rathayibacter rathayi NCPPB 2980 = VKM Ac-1601", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900215645.1", "bioproject": "PRJNA224116", "biosample": "SAMN06295924", "wgs_master": "OCNL00000000.1", "refseq_category": "na", "taxid": "1328865", "species_taxid": "33887", "organism_name": "Rathayibacter rathayi NCPPB 2980 = VKM Ac-1601", "infraspecific_name": "strain=VKM Ac-1601", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/09/28", "asm_name": "IMG-taxon 2716884894 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900215645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/215/645/GCF_900215645.1_IMG-taxon_2716884894_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": "3222676", "genome_size_ungapped": "3222327", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900215645.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3145", "protein_coding_gene_count": "3058", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-09-28", "dateModified": "2017-09-28", "datePublished": "2017-09-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Rathayibacter rathayi NCPPB 2980 = VKM Ac-1601" ], "sample_taxid": [ "1328865" ], "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": "0.875 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)": "3222676", "Number of Sequences": "45", "Longest Sequences (bp)": "587902", "N50 (bp)": "321699", "Gap Ratio (%)": "0.010830", "GCcontent (%)": "69.3", "Number of CDSs": "3145", "Average Protein Length": "299.3", "Coding Ratio (%)": "87.6", "Number of rRNAs": "3", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rathayibacter rathayi", "strain": "strain=VKM Ac-1601", "accession": 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"ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004011095.1", "gtdb_species": "s__Rathayibacter rathayi", "ani": 99.966, "matched_fragments": 1004, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Rathayibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.62", "min_intra_species_ani": "99.25", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 27, "status": "conclusive" }, { "accession": "GCF_002932875.1", "gtdb_species": "s__Rathayibacter tritici", "ani": 92.041, "matched_fragments": 852, "total_fragments": 1050, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Rathayibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.66", 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