{ "type": "genome", "identifier": "GCF_900636625.1", "organism": "Pasteurella multocida subsp. gallicida", "title": "Pasteurella multocida subsp. gallicida", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900636625.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3696435", "wgs_master": "na", "refseq_category": "na", "taxid": "123812", "species_taxid": "747", "organism_name": "Pasteurella multocida subsp. gallicida", "infraspecific_name": "strain=NCTC10204", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/20", "asm_name": "43295_B02", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900636625.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/636/625/GCF_900636625.1_43295_B02", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2325350", "genome_size_ungapped": "2325350", "gc_percent": "40.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-13", "total_gene_count": "2226", "protein_coding_gene_count": "2123", "non_coding_gene_count": "80", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-20", "dateModified": "2018-12-20", "datePublished": "2018-12-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Pasteurella multocida subsp. gallicida" ], "sample_taxid": [ "123812" ], "sample_host_organism": [ "Cow" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: Cheshire (Region)" ], "sample_host_location_id": [], "data_size": "0.658 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)": "2325350", "Number of Sequences": "1", "Longest Sequences (bp)": "2325350", "N50 (bp)": "2325350", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.3", "Number of CDSs": "2160", "Average Protein Length": "318.9", "Coding Ratio (%)": "88.9", "Number of rRNAs": "19", "Number of tRNAs": "57", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pasteurella multocida subsp. gallicida", "strain": "strain=NCTC10204", "accession": "GCA_900636625.1", "taxid": 123812, "species_taxid": 747, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 772, "total_fragments": 775, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pasteurella multocida", "strain": "strain=ATCC 43137", "accession": "GCA_000754275.1", "taxid": 747, "species_taxid": 747, "relation_to_type": "type", "validated": true, "ani": 98.7114, "matched_fragments": 712, "total_fragments": 775, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pasteurella multocida", "strain": "strain=NCTC10322", "accession": "GCA_900187275.1", "taxid": 747, "species_taxid": 747, "relation_to_type": "type", "validated": true, "ani": 98.7091, "matched_fragments": 713, "total_fragments": 775, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pasteurella multocida subsp. septica", "strain": "strain=NCTC11995", "accession": "GCA_900454845.1", "taxid": 115545, "species_taxid": 747, "relation_to_type": "type", "validated": true, "ani": 96.5218, "matched_fragments": 700, "total_fragments": 775, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pasteurella dagmatis", "strain": "strain=NCTC11617", "accession": "GCA_900186835.1", "taxid": 754, "species_taxid": 754, "relation_to_type": "type", "validated": true, "ani": 80.6645, "matched_fragments": 409, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pasteurella canis", "strain": "strain=NCTC11621", "accession": "GCA_900454865.1", "taxid": 753, "species_taxid": 753, "relation_to_type": "type", "validated": true, "ani": 80.5163, "matched_fragments": 442, "total_fragments": 775, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900187275.1", "gtdb_species": "s__Pasteurella multocida", "ani": 98.7101, "matched_fragments": 714, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Pasteurella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.93", "min_intra_species_ani": "96.53", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.57", "num_clustered_genomes": 288, "status": "conclusive" }, { "accession": "GCF_000973525.1", "gtdb_species": "s__Pasteurella multocida_A", "ani": 80.9616, "matched_fragments": 441, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Pasteurella", "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_900186835.1", "gtdb_species": "s__Pasteurella dagmatis", "ani": 80.6651, "matched_fragments": 410, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Pasteurella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.39", "min_intra_species_ani": "98.82", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900454865.1", "gtdb_species": "s__Pasteurella canis", "ani": 80.5923, "matched_fragments": 444, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Pasteurella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "98.68", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002850605.1", "gtdb_species": "s__Pasteurella oralis", "ani": 80.5232, "matched_fragments": 473, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Pasteurella", "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_014931395.1", "gtdb_species": "s__Haemophilus_D sp900764435", "ani": 79.0867, "matched_fragments": 186, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Haemophilus_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.55", "min_intra_species_ani": "95.23", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_014931275.1", "gtdb_species": "s__Haemophilus_D sp900755445", "ani": 79.0316, "matched_fragments": 200, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Haemophilus_D", "ani_circumscription_radius": 95.096, "mean_intra_species_ani": "96.11", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_002015125.1", "gtdb_species": "s__Pasteurella felis", "ani": 78.9657, "matched_fragments": 237, "total_fragments": 775, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Pasteurella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.37", "min_intra_species_ani": "98.52", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000210895.1", "gtdb_species": "s__Haemophilus_D parainfluenzae_A", "ani": 78.9407, "matched_fragments": 202, "total_fragments": 775, "gtdb_taxonomy": 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