{ "type": "genome", "identifier": "GCF_000168035.1", "organism": "Yersinia intermedia ATCC 29909", "title": "Yersinia intermedia ATCC 29909", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Naval Medical Research Center", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000168035.1", "bioproject": "PRJNA224116", "biosample": "SAMN00005354", "wgs_master": "AALF00000000.2", "refseq_category": "na", "taxid": "349965", "species_taxid": "631", "organism_name": "Yersinia intermedia ATCC 29909", "infraspecific_name": "strain=ATCC 29909", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2009/06/01", "asm_name": "ASM16803v1", "asm_submitter": "Naval Medical Research Center", "gbrs_paired_asm": "GCA_000168035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/168/035/GCF_000168035.1_ASM16803v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4711317", "genome_size_ungapped": "4711317", "gc_percent": "47.500000", "replicon_count": "0", "scaffold_count": "123", "contig_count": "123", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000168035.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "4254", "protein_coding_gene_count": "4037", "non_coding_gene_count": "104", "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 intermedia ATCC 29909" ], "sample_taxid": [ "349965" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.344 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)": "4708878", "Number of Sequences": "107", "Longest Sequences (bp)": "297918", "N50 (bp)": "123751", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.4", "Number of CDSs": "4107", "Average Protein Length": "321.3", "Coding Ratio (%)": "84.1", "Number of rRNAs": "1", "Number of tRNAs": "62", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Yersinia intermedia", "strain": "strain=ATCC 29909", "accession": "GCA_000168035.1", "taxid": 631, "species_taxid": 631, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1526, "total_fragments": 1529, 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alsatica", "strain": "strain=IP38850", "accession": "GCA_902170305.1", "taxid": 2890317, "species_taxid": 2890317, "relation_to_type": "type", "validated": true, "ani": 84.8203, "matched_fragments": 1148, "total_fragments": 1529, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia enterocolitica subsp. enterocolitica", "strain": "strain=NCTC12982", "accession": "GCA_901472495.1", "taxid": 150052, "species_taxid": 630, "relation_to_type": "type", "validated": true, "ani": 84.7724, "matched_fragments": 1082, "total_fragments": 1529, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia aldovae", "strain": "strain=ATCC 35236", "accession": "GCA_000173735.1", "taxid": 29483, "species_taxid": 29483, "relation_to_type": "type", "validated": true, "ani": 84.7617, "matched_fragments": 1019, "total_fragments": 1529, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia aldovae", "strain": "strain=IP06005", "accession": "GCA_001091225.1", "taxid": 29483, "species_taxid": 29483, "relation_to_type": "type", "validated": true, "ani": 84.6837, "matched_fragments": 1050, "total_fragments": 1529, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia proxima", "strain": "strain=IP37424", "accession": "GCA_902170785.1", "taxid": 2890316, "species_taxid": 2890316, "relation_to_type": "type", "validated": true, "ani": 84.5241, "matched_fragments": 1095, "total_fragments": 1529, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia rochesterensis", "strain": "strain=ATCC BAA-2637", "accession": "GCA_003600645.1", "taxid": 1604335, "species_taxid": 1604335, "relation_to_type": "type", "validated": true, "ani": 84.4693, "matched_fragments": 1091, "total_fragments": 1529, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia frederiksenii", "strain": "strain=ATCC 33641", "accession": "GCA_000168015.1", "taxid": 29484, 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