{ "type": "genome", "identifier": "GCF_000828125.2", "organism": "Rickettsia asembonensis", "title": "Rickettsia asembonensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Naval Medical Research Center", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000828125.2", "bioproject": "PRJNA224116", "biosample": "SAMN03272870", "wgs_master": "JWSW00000000.1", "refseq_category": "reference genome", "taxid": "1068590", "species_taxid": "1068590", "organism_name": "Rickettsia asembonensis", "infraspecific_name": "strain=NMRCii", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/03/25", "asm_name": "ASM82812v2", "asm_submitter": "Naval Medical Research Center", "gbrs_paired_asm": "GCA_000828125.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/828/125/GCF_000828125.2_ASM82812v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1376743", "genome_size_ungapped": "1376743", "gc_percent": "32.000000", "replicon_count": "1", "scaffold_count": "88", "contig_count": "88", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000828125.2-RS_2025_01_08", "annotation_date": "2025-01-08", "total_gene_count": "1673", "protein_coding_gene_count": "1476", "non_coding_gene_count": "41", "pubmed_id": "25767219" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-03-25", "dateModified": "2016-03-25", "datePublished": "2016-03-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Rickettsia asembonensis" ], "sample_taxid": [ "1068590" ], "sample_host_organism": [ "Ctenocephalides felis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Kenya: Asembo sub-county of Siaya County" ], "sample_host_location_id": [], "data_size": "0.382 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "1376743", "Number of Sequences": "88", "Longest Sequences (bp)": "86066", "N50 (bp)": "28854", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "32.2", "Number of CDSs": "1349", "Average Protein Length": "269.1", "Coding Ratio (%)": "79.1", "Number of rRNAs": "3", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rickettsia asembonensis", "strain": "strain=NMRCii", "accession": "GCA_000828125.2", "taxid": 1068590, "species_taxid": 1068590, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 408, "total_fragments": 417, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Rickettsia hoogstraalii", "strain": "strain=Croatica", "accession": "GCA_000825685.1", "taxid": 467174, "species_taxid": 467174, "relation_to_type": "type", "validated": true, "ani": 95.8684, "matched_fragments": 384, "total_fragments": 417, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Rickettsia tillamookensis", "strain": "strain=Tillamook 23", "accession": "GCA_016743795.1", "taxid": 2761623, "species_taxid": 2761623, "relation_to_type": "type", "validated": true, "ani": 95.0009, "matched_fragments": 377, "total_fragments": 417, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Rickettsia tamurae", "strain": "strain=AT-1", "accession": "GCA_000751075.1", "taxid": 334545, "species_taxid": 334545, "relation_to_type": "type", "validated": true, "ani": 93.6045, "matched_fragments": 355, "total_fragments": 417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rickettsia australis", "strain": "strain=Phillips", "accession": "GCA_000273745.1", "taxid": 787, "species_taxid": 787, "relation_to_type": "type", "validated": true, "ani": 93.3725, "matched_fragments": 352, "total_fragments": 417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rickettsia tamurae subsp. buchneri", "strain": "strain=ISO7", "accession": "GCA_000696365.2", "taxid": 1462938, "species_taxid": 334545, "relation_to_type": "type", "validated": true, "ani": 93.3018, "matched_fragments": 295, "total_fragments": 417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rickettsia rhipicephali", "strain": "strain=3-7-female6-CWPP", "accession": "GCA_000284075.1", "taxid": 33992, "species_taxid": 33992, "relation_to_type": "type", "validated": true, "ani": 92.9007, "matched_fragments": 361, "total_fragments": 417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rickettsia prowazekii", "strain": "strain=Breinl", "accession": "GCA_000367405.1", "taxid": 782, "species_taxid": 782, "relation_to_type": "type", "validated": true, "ani": 86.0926, "matched_fragments": 320, "total_fragments": 417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rickettsia typhi", "strain": "strain=Wilmington", "accession": "GCA_000008045.1", "taxid": 785, "species_taxid": 785, "relation_to_type": "type", "validated": true, "ani": 85.8394, "matched_fragments": 321, "total_fragments": 417, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000828125.2", "gtdb_species": "s__Rickettsia asembonensis", "ani": 100.0, "matched_fragments": 408, "total_fragments": 417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rickettsiales;f__Rickettsiaceae;g__Rickettsia", "ani_circumscription_radius": 95.8797, "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": "conclusive" }, { "accession": "GCA_000012145.1", "gtdb_species": "s__Rickettsia felis", "ani": 95.8797, "matched_fragments": 378, "total_fragments": 417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rickettsiales;f__Rickettsiaceae;g__Rickettsia", "ani_circumscription_radius": 95.8797, "mean_intra_species_ani": "98.88", "min_intra_species_ani": "96.13", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_000825685.1", "gtdb_species": "s__Rickettsia hoogstraalii", "ani": 95.8517, "matched_fragments": 385, "total_fragments": 417, "gtdb_taxonomy": 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"d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rickettsiales;f__Rickettsiaceae;g__Rickettsia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.18", "min_intra_species_ani": "96.01", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.73", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000273745.1", "gtdb_species": "s__Rickettsia australis", "ani": 93.3725, "matched_fragments": 352, "total_fragments": 417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rickettsiales;f__Rickettsiaceae;g__Rickettsia", "ani_circumscription_radius": 95.501, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000284075.1", "gtdb_species": "s__Rickettsia rhipicephali", "ani": 92.9007, "matched_fragments": 361, "total_fragments": 417, "gtdb_taxonomy": 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