{ "type": "genome", "identifier": "GCF_004124235.1", "organism": "Yersinia hibernica", "title": "Yersinia hibernica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University College Dublin", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004124235.1", "bioproject": "PRJNA224116", "biosample": "SAMN10078524", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2339259", "species_taxid": "2339259", "organism_name": "Yersinia hibernica", "infraspecific_name": "strain=CFS1934", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/01/31", "asm_name": "ASM412423v1", "asm_submitter": "University College Dublin", "gbrs_paired_asm": "GCA_004124235.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/124/235/GCF_004124235.1_ASM412423v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4803435", "genome_size_ungapped": "4803435", "gc_percent": "48.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004124235.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "4426", "protein_coding_gene_count": "4234", "non_coding_gene_count": "110", "pubmed_id": "31066656" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-01-31", "dateModified": "2019-01-31", "datePublished": "2019-01-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Yersinia hibernica" ], "sample_taxid": [ "2339259" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Ireland" ], "sample_host_location_id": [], "data_size": "1.365 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)": "4803435", "Number of Sequences": "2", "Longest Sequences (bp)": "4742939", "N50 (bp)": "4742939", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.9", "Number of CDSs": "4298", "Average Protein Length": "317.7", "Coding Ratio (%)": "85.3", "Number of rRNAs": "22", "Number of tRNAs": "81", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Yersinia hibernica", "strain": "strain=CFS1934", "accession": "GCA_004124235.1", "taxid": 2339259, "species_taxid": 2339259, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1594, "total_fragments": 1600, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Yersinia canariae", "strain": "strain=NCTC 14382", "accession": "GCA_009831415.1", "taxid": 2607663, "species_taxid": 2607663, "relation_to_type": "type", "validated": true, "ani": 90.1167, "matched_fragments": 1323, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia thracica", "strain": "strain=IP34646", "accession": "GCA_902170565.1", "taxid": 2890319, "species_taxid": 2890319, "relation_to_type": "type", "validated": true, "ani": 86.8564, "matched_fragments": 1158, "total_fragments": 1600, "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": 86.7717, "matched_fragments": 1208, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia artesiana", "strain": "strain=IP42281", "accession": "GCA_902726545.1", "taxid": 2890315, "species_taxid": 2890315, "relation_to_type": "type", "validated": true, "ani": 86.5854, "matched_fragments": 1152, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia kristensenii", "strain": "strain=NCTC11471", "accession": "GCA_900460525.1", "taxid": 28152, "species_taxid": 28152, "relation_to_type": "type", "validated": true, "ani": 86.5779, "matched_fragments": 1234, "total_fragments": 1600, "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": 86.4747, "matched_fragments": 1216, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia kristensenii", "strain": "strain=ATCC 33638", "accession": "GCA_000173715.1", "taxid": 28152, "species_taxid": 28152, "relation_to_type": "type", "validated": true, "ani": 86.4636, "matched_fragments": 1198, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia enterocolitica subsp. palearctica", "strain": "strain=NCTC13769", "accession": "GCA_900637005.1", "taxid": 150053, "species_taxid": 630, "relation_to_type": "type", "validated": true, "ani": 86.4029, "matched_fragments": 1215, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia enterocolitica subsp. enterocolitica", "strain": "strain=NBRC 105693", "accession": "GCA_001598735.1", "taxid": 150052, "species_taxid": 630, "relation_to_type": "type", "validated": true, "ani": 86.4018, "matched_fragments": 1178, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia enterocolitica subsp. palearctica", "strain": "strain=Y11", "accession": "GCA_000253175.1", "taxid": 150053, "species_taxid": 630, "relation_to_type": "type", "validated": true, "ani": 86.395, "matched_fragments": 1204, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia enterocolitica", "strain": "strain=ATCC 9610", "accession": "GCA_000755055.1", "taxid": 630, "species_taxid": 630, "relation_to_type": "type", "validated": true, "ani": 86.38, "matched_fragments": 1218, "total_fragments": 1600, "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": 86.2873, "matched_fragments": 1220, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yersinia alsatica", "strain": "strain=IP38850", "accession": "GCA_902170305.1", "taxid": 2890317, 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79.3106, "matched_fragments": 353, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rahnella rivi", "strain": "strain=FC061912-K", "accession": "GCA_019049655.1", "taxid": 2816249, "species_taxid": 2816249, "relation_to_type": "type", "validated": true, "ani": 78.6806, "matched_fragments": 337, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter cloacae", "strain": "strain=DSM 30054", "accession": "GCA_021469225.1", "taxid": 550, "species_taxid": 550, "relation_to_type": "type", "validated": true, "ani": 77.9987, "matched_fragments": 253, "total_fragments": 1600, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004124235.1", "gtdb_species": "s__Yersinia hibernica", "ani": 100.0, "matched_fragments": 1595, "total_fragments": 1600, "gtdb_taxonomy": 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