{ "type": "genome", "identifier": "GCF_002087075.1", "organism": "Streptococcus pseudopneumoniae ATCC BAA-960 = CCUG 49455", "title": "Streptococcus pseudopneumoniae ATCC BAA-960 = CCUG 49455", "description": "na", "data type": "Genome sequencing and assembly", "organization": "TAILORED-Treatment project", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002087075.1", "bioproject": "PRJNA224116", "biosample": "SAMN06459226", "wgs_master": "MWSM00000000.1", "refseq_category": "na", "taxid": "889205", "species_taxid": "257758", "organism_name": "Streptococcus pseudopneumoniae ATCC BAA-960 = CCUG 49455", "infraspecific_name": "strain=CCUG 49455", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/11", "asm_name": "ASM208707v1", "asm_submitter": "TAILORED-Treatment project", "gbrs_paired_asm": "GCA_002087075.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/087/075/GCF_002087075.1_ASM208707v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2172620", "genome_size_ungapped": "2170361", "gc_percent": "40.000000", "replicon_count": "0", "scaffold_count": "86", "contig_count": "86", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002087075.1-RS_2024_05_11", "annotation_date": "2024-05-11", "total_gene_count": "2297", "protein_coding_gene_count": "2050", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-11", "dateModified": "2017-04-11", "datePublished": "2017-04-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus pseudopneumoniae ATCC BAA-960 = CCUG 49455" ], "sample_taxid": [ "889205" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "Pneumonia" ], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Nova Scotia, Halifax" ], "sample_host_location_id": [], "data_size": "0.617 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)": "2172620", "Number of Sequences": "86", "Longest Sequences (bp)": "194644", "N50 (bp)": "59446", "Gap Ratio (%)": "0.106093", "GCcontent (%)": "39.9", "Number of CDSs": "2162", "Average Protein Length": "280.0", "Coding Ratio (%)": "83.6", "Number of rRNAs": "2", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus pseudopneumoniae", "strain": "strain=CCUG 49455", 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91.9191, "matched_fragments": 481, "total_fragments": 683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus vulneris", "strain": "strain=DM3B3", "accession": "GCA_019218685.1", "taxid": 2853160, "species_taxid": 2853160, "relation_to_type": "type", "validated": true, "ani": 91.8482, "matched_fragments": 477, "total_fragments": 683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus symci", "strain": "strain=C17", "accession": "GCA_006385165.1", "taxid": 2588991, "species_taxid": 2588991, "relation_to_type": "type", "validated": true, "ani": 91.4686, "matched_fragments": 485, "total_fragments": 683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus downii", "strain": "strain=CECT 9732", "accession": "GCA_004353325.1", "taxid": 1968889, "species_taxid": 1968889, "relation_to_type": "type", "validated": true, "ani": 86.7541, "matched_fragments": 445, "total_fragments": 683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus parasuis", "strain": "strain=SUT-286", "accession": "GCA_021654455.1", "taxid": 1501662, "species_taxid": 1501662, "relation_to_type": "suspected-type", "validated": true, "ani": 79.9276, "matched_fragments": 122, "total_fragments": 683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus oriscaviae", "strain": "strain=HKU75", "accession": "GCA_018137985.1", "taxid": 2781599, "species_taxid": 2781599, "relation_to_type": "type", "validated": true, "ani": 78.2927, "matched_fragments": 98, "total_fragments": 683, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002087075.1", "gtdb_species": "s__Streptococcus pseudopneumoniae", "ani": 100.0, "matched_fragments": 681, "total_fragments": 683, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Streptococcus", "pseudopneumoniae", "ATCC", "BAA-960", "=", "CCUG", "49455" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }