{ "type": "genome", "identifier": "GCF_000173775.1", "organism": "Yersinia rohdei ATCC 43380", "title": "Yersinia rohdei ATCC 43380", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Naval Medical Research Center", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000173775.1", "bioproject": "PRJNA224116", "biosample": "SAMN00005360", "wgs_master": "ACCD00000000.1", "refseq_category": "na", "taxid": "527004", "species_taxid": "29485", "organism_name": "Yersinia rohdei ATCC 43380", "infraspecific_name": "strain=ATCC 43380", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2009/06/01", "asm_name": "ASM17377v1", "asm_submitter": "Naval Medical Research Center", "gbrs_paired_asm": "GCA_000173775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/173/775/GCF_000173775.1_ASM17377v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4317478", "genome_size_ungapped": "4317478", "gc_percent": "47.000000", "replicon_count": "0", "scaffold_count": "141", "contig_count": "141", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000173775.1-RS_2024_05_15", "annotation_date": "2024-05-15", "total_gene_count": "3879", "protein_coding_gene_count": "3723", "non_coding_gene_count": "72", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2009-06-01", "dateModified": "2009-06-01", "datePublished": "2009-06-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Yersinia rohdei ATCC 43380" ], "sample_taxid": [ "527004" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.234 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)": "4312668", "Number of Sequences": "105", "Longest Sequences (bp)": "531074", "N50 (bp)": "115868", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.0", "Number of CDSs": "3720", "Average Protein Length": "320.8", "Coding Ratio (%)": "83.0", "Number of rRNAs": "2", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Yersinia rohdei", "strain": "strain=ATCC 43380", "accession": "GCA_000173775.1", "taxid": 29485, "species_taxid": 29485, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1394, "total_fragments": 1398, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Yersinia alsatica", "strain": "strain=IP38850", "accession": "GCA_902170305.1", "taxid": 2890317, "species_taxid": 2890317, "relation_to_type": "type", "validated": true, "ani": 86.1906, "matched_fragments": 1153, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia frederiksenii", "strain": "strain=NCTC11470", "accession": "GCA_900460425.1", "taxid": 29484, "species_taxid": 29484, "relation_to_type": "suspected-type", "validated": true, "ani": 85.9117, "matched_fragments": 1147, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia frederiksenii", "strain": "strain=ATCC 33641", "accession": "GCA_000754805.1", "taxid": 29484, "species_taxid": 29484, "relation_to_type": "suspected-type", "validated": true, "ani": 85.818, "matched_fragments": 1159, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia frederiksenii", "strain": "strain=ATCC 33641", "accession": "GCA_000168015.1", "taxid": 29484, "species_taxid": 29484, "relation_to_type": "suspected-type", "validated": true, "ani": 85.8103, "matched_fragments": 1130, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia vastinensis", "strain": "strain=IP38594", "accession": "GCA_902726565.1", "taxid": 2890318, "species_taxid": 2890318, "relation_to_type": "type", "validated": true, "ani": 85.4115, "matched_fragments": 1103, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia canariae", "strain": "strain=NCTC 14382", "accession": "GCA_009831415.1", "taxid": 2607663, "species_taxid": 2607663, "relation_to_type": "type", "validated": true, "ani": 85.3189, "matched_fragments": 1121, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia rochesterensis", "strain": 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282, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photorhabdus kayaii", "strain": "strain=DSM 15194", "accession": "GCA_025384895.1", "taxid": 230088, "species_taxid": 230088, "relation_to_type": "type", "validated": true, "ani": 77.8098, "matched_fragments": 168, "total_fragments": 1398, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000173775.1", "gtdb_species": "s__Yersinia rohdei", "ani": 100.0, "matched_fragments": 1394, "total_fragments": 1398, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Yersinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.41", "min_intra_species_ani": "99.12", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 12, "status": "conclusive" }, { 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