{ "type": "genome", "identifier": "GCF_900109845.1", "organism": "Pasteurella skyensis", "title": "Pasteurella skyensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900109845.1", "bioproject": "PRJNA224116", "biosample": "SAMN05444853", "wgs_master": "FOBN00000000.1", "refseq_category": "na", "taxid": "97481", "species_taxid": "97481", "organism_name": "Pasteurella skyensis", "infraspecific_name": "strain=DSM 24204", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2675903214 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900109845.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/109/845/GCF_900109845.1_IMG-taxon_2675903214_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": "2191244", "genome_size_ungapped": "2191244", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "56", "contig_count": "56", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-08-12", "total_gene_count": "2149", "protein_coding_gene_count": "2061", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-31", "dateModified": "2016-10-31", "datePublished": "2016-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Pasteurella skyensis DSM 24204" ], "sample_taxid": [ "1122937" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom:Skye, Scotland" ], "sample_host_location_id": [], "data_size": "0.615 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)": "2191244", "Number of Sequences": "56", "Longest Sequences (bp)": "198966", "N50 (bp)": "76522", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.9", "Number of CDSs": "2074", "Average Protein Length": "306.4", "Coding Ratio (%)": "87.0", "Number of rRNAs": "4", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pasteurella skyensis", "strain": "strain=DSM 24204", 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"matched_fragments": 74, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haemophilus seminalis", "strain": "strain=SZY H1", "accession": "GCA_006384255.1", "taxid": 2582921, "species_taxid": 2582921, "relation_to_type": "type", "validated": true, "ani": 77.8344, "matched_fragments": 95, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glaesserella parasuis", "strain": "strain=CCUG 3712", "accession": "GCA_002015085.1", "taxid": 738, "species_taxid": 738, "relation_to_type": "type", "validated": true, "ani": 77.7715, "matched_fragments": 128, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vespertiliibacter pulmonis", "strain": "strain=CCUG 64585", "accession": "GCA_013377275.1", "taxid": 1443036, "species_taxid": 1443036, "relation_to_type": "type", "validated": true, "ani": 77.6428, "matched_fragments": 152, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bisgaardia hudsonensis", "strain": "strain=M327/99/2", "accession": "GCA_013377195.1", "taxid": 109472, "species_taxid": 109472, "relation_to_type": "type", "validated": true, "ani": 77.6128, "matched_fragments": 132, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bibersteinia trehalosi", "strain": "strain=DSM 23101", "accession": "GCA_004346205.1", "taxid": 47735, "species_taxid": 47735, "relation_to_type": "type", "validated": true, "ani": 77.5501, "matched_fragments": 114, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vespertiliibacter pulmonis", "strain": "strain=DSM 27238", "accession": "GCA_003843855.1", "taxid": 1443036, "species_taxid": 1443036, "relation_to_type": "type", "validated": true, "ani": 77.5258, "matched_fragments": 151, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { 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"strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013377295.1", "gtdb_species": "s__Phocoenobacter skyensis", "ani": 99.9884, "matched_fragments": 693, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Phocoenobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_018343795.1", "gtdb_species": "s__Phocoenobacter atlantica", "ani": 87.8608, "matched_fragments": 479, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Phocoenobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", 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