{ "type": "genome", "identifier": "GCF_900239975.1", "organism": "Chlamydia poikilotherma", "title": "Chlamydia poikilotherma", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Functional Genomics Genter Zurich", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900239975.1", "bioproject": "PRJNA224116", "biosample": "SAMEA103918594", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1967783", "species_taxid": "1967783", "organism_name": "Chlamydia poikilotherma", "infraspecific_name": "strain=S15-834K", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/20", "asm_name": "Chlamydia sp. S15-834K", "asm_submitter": "Functional Genomics Genter Zurich", "gbrs_paired_asm": "GCA_900239975.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/239/975/GCF_900239975.1_Chlamydia_sp._S15-834K", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1162663", "genome_size_ungapped": "1162663", "gc_percent": "37.500000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900239975.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "1038", "protein_coding_gene_count": "991", "non_coding_gene_count": "44", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-20", "dateModified": "2018-08-20", "datePublished": "2018-08-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Chlamydia poikilotherma" ], "sample_taxid": [ "1967783" ], "sample_host_organism": [ "Pantherophis guttatus" ], "sample_host_organism_id": [], "sample_host_disease": [ "not provided" ], "sample_host_disease_id": [], "sample_host_location": [ "Switzerland" ], "sample_host_location_id": [], "data_size": "0.329 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)": "1162663", "Number of Sequences": "2", "Longest Sequences (bp)": "1155104", "N50 (bp)": "1155104", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.5", "Number of CDSs": "999", "Average Protein Length": "347.6", "Coding Ratio (%)": "89.6", "Number of rRNAs": "3", "Number of tRNAs": "38", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chlamydia poikilotherma", "strain": "strain=S15-834K", "accession": "GCA_900239975.1", "taxid": 1967783, "species_taxid": 1967783, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 387, "total_fragments": 387, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chlamydia caviae", "strain": "", "accession": "GCA_000007605.1", "taxid": 83557, "species_taxid": 83557, "relation_to_type": "type", "validated": true, "ani": 87.0657, "matched_fragments": 361, "total_fragments": 387, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chlamydia buteonis", "strain": "", "accession": "GCA_900634605.1", "taxid": 2494525, "species_taxid": 2494525, "relation_to_type": "type", "validated": true, "ani": 83.669, "matched_fragments": 315, "total_fragments": 387, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chlamydia psittaci", "strain": "strain=6BC", "accession": "GCA_000191925.1", "taxid": 83554, "species_taxid": 83554, "relation_to_type": "type", "validated": true, "ani": 83.6656, "matched_fragments": 306, "total_fragments": 387, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chlamydia psittaci", "strain": "strain=6BC", "accession": "GCA_000204255.1", "taxid": 83554, "species_taxid": 83554, "relation_to_type": "type", "validated": true, "ani": 83.6385, "matched_fragments": 307, "total_fragments": 387, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900239975.1", "gtdb_species": "s__Chlamydophila sp900239975", "ani": 100.0, "matched_fragments": 387, "total_fragments": 387, "gtdb_taxonomy": "d__Bacteria;p__Chlamydiota;c__Chlamydiia;o__Chlamydiales;f__Chlamydiaceae;g__Chlamydophila", "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": "conclusive" }, { "accession": "GCF_018343815.1", "gtdb_species": "s__Chlamydophila sp018343815", "ani": 92.4468, "matched_fragments": 384, "total_fragments": 387, "gtdb_taxonomy": "d__Bacteria;p__Chlamydiota;c__Chlamydiia;o__Chlamydiales;f__Chlamydiaceae;g__Chlamydophila", "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_000007605.1", "gtdb_species": "s__Chlamydophila caviae", "ani": 87.0928, "matched_fragments": 360, "total_fragments": 387, "gtdb_taxonomy": "d__Bacteria;p__Chlamydiota;c__Chlamydiia;o__Chlamydiales;f__Chlamydiaceae;g__Chlamydophila", "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_000009945.1", "gtdb_species": "s__Chlamydophila felis", "ani": 83.7804, "matched_fragments": 320, "total_fragments": 387, "gtdb_taxonomy": "d__Bacteria;p__Chlamydiota;c__Chlamydiia;o__Chlamydiales;f__Chlamydiaceae;g__Chlamydophila", "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_900634605.1", "gtdb_species": "s__Chlamydophila buteonis", "ani": 83.669, "matched_fragments": 315, "total_fragments": 387, "gtdb_taxonomy": "d__Bacteria;p__Chlamydiota;c__Chlamydiia;o__Chlamydiales;f__Chlamydiaceae;g__Chlamydophila", "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", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000204255.1", "gtdb_species": "s__Chlamydophila psittaci", "ani": 83.6175, "matched_fragments": 308, "total_fragments": 387, "gtdb_taxonomy": "d__Bacteria;p__Chlamydiota;c__Chlamydiia;o__Chlamydiales;f__Chlamydiaceae;g__Chlamydophila", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "97.64", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.97", "num_clustered_genomes": 66, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": 0.311, "growth_tmp": 37.0, "optimum_tmp": 36.984, "optimum_ph": null, "genome_size": 1131791.016, "gc_content": 39.523, "coding_genes": 952.339, "rRNA16S_genes": 1.305, "tRNA_genes": 37.8, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.875, "coccus_cell_shape": 0.125, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Chlamydia", "poikilotherma" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }