{ "type": "genome", "identifier": "GCF_000754815.1", "organism": "Yersinia ruckeri ATCC 29473", "title": "Yersinia ruckeri ATCC 29473", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Los Alamos National Laboratory", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000754815.1", "bioproject": "PRJNA224116", "biosample": "SAMN02940942", "wgs_master": "JPPT00000000.1", "refseq_category": "na", "taxid": "527005", "species_taxid": "29486", "organism_name": "Yersinia ruckeri ATCC 29473", "infraspecific_name": "strain=ATCC 29473", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/09/16", "asm_name": "YRC", "asm_submitter": "Los Alamos National Laboratory", "gbrs_paired_asm": "GCA_000754815.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/754/815/GCF_000754815.1_YRC", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3772809", "genome_size_ungapped": "3771509", "gc_percent": "47.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000754815.1-RS_2024_05_16", "annotation_date": "2024-05-16", "total_gene_count": "3446", "protein_coding_gene_count": "3260", "non_coding_gene_count": "91", "pubmed_id": "25342679" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-09-16", "dateModified": "2014-09-16", "datePublished": "2014-09-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Yersinia ruckeri ATCC 29473" ], "sample_taxid": [ "527005" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "unknown" ], "sample_host_location_id": [], "data_size": "1.073 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)": "3772809", "Number of Sequences": "2", "Longest Sequences (bp)": "3672847", "N50 (bp)": "3672847", "Gap Ratio (%)": "0.034457", "GCcontent (%)": "47.4", "Number of CDSs": "3344", "Average Protein Length": "316.2", "Coding Ratio (%)": "84.1", "Number of rRNAs": "8", "Number of tRNAs": "74", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Yersinia ruckeri", "strain": "strain=ATCC 29473", "accession": "GCA_000754815.1", "taxid": 29486, "species_taxid": 29486, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1256, "total_fragments": 1257, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Yersinia ruckeri", "strain": "strain=NCTC12986", "accession": "GCA_900460715.1", "taxid": 29486, "species_taxid": 29486, "relation_to_type": "type", "validated": true, "ani": 99.9752, "matched_fragments": 1255, "total_fragments": 1257, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Yersinia ruckeri", "strain": "strain=ATCC 29473", "accession": "GCA_000173755.1", "taxid": 29486, "species_taxid": 29486, "relation_to_type": "type", "validated": true, "ani": 99.9427, "matched_fragments": 1178, "total_fragments": 1257, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Yersinia entomophaga", "strain": "strain=MH96", "accession": "GCA_001656035.1", "taxid": 935293, "species_taxid": 935293, "relation_to_type": "type", "validated": true, "ani": 84.0958, "matched_fragments": 853, "total_fragments": 1257, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia intermedia", "strain": "strain=NCTC11469", "accession": "GCA_900635455.1", "taxid": 631, "species_taxid": 631, "relation_to_type": "type", "validated": true, "ani": 81.4681, "matched_fragments": 616, "total_fragments": 1257, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia mollaretii", "strain": "strain=ATCC 43969", "accession": "GCA_013282725.1", "taxid": 33060, "species_taxid": 33060, "relation_to_type": "type", "validated": true, "ani": 81.022, "matched_fragments": 640, "total_fragments": 1257, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia hibernica", "strain": "strain=CFS1934", "accession": "GCA_004124235.1", "taxid": 2339259, "species_taxid": 2339259, "relation_to_type": "type", "validated": true, "ani": 81.0204, "matched_fragments": 614, "total_fragments": 1257, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia aldovae", "strain": "strain=IP06005", "accession": "GCA_001091225.1", "taxid": 29483, 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81.362, "matched_fragments": 613, "total_fragments": 1257, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Yersinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.46", "min_intra_species_ani": "98.81", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_002082245.2", "gtdb_species": "s__Yersinia enterocolitica_E", "ani": 81.3592, "matched_fragments": 647, "total_fragments": 1257, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Yersinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_013282745.1", "gtdb_species": "s__Yersinia bercovieri", "ani": 81.3031, "matched_fragments": 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