{ "type": "genome", "identifier": "GCF_001642085.1", "organism": "Streptococcus pantholopis", "title": "Streptococcus pantholopis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute for Communicable Disease Control and Prevention", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001642085.1", "bioproject": "PRJNA224116", "biosample": "SAMN04534843", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1811193", "species_taxid": "1811193", "organism_name": "Streptococcus pantholopis", "infraspecific_name": "strain=TA 26", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/11", "asm_name": "ASM164208v1", "asm_submitter": "National Institute for Communicable Disease Control and Prevention", "gbrs_paired_asm": "GCA_001642085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/642/085/GCF_001642085.1_ASM164208v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2241302", "genome_size_ungapped": "2241302", "gc_percent": "42.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-03-04", "total_gene_count": "2115", "protein_coding_gene_count": "1997", "non_coding_gene_count": "85", "pubmed_id": "27226124" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-11", "dateModified": "2016-05-11", "datePublished": "2016-05-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus pantholopis" ], "sample_taxid": [ "1811193" ], "sample_host_organism": [ "Tibetan antelope" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Hoh Xil National Nature Reserve, Qinghai" ], "sample_host_location_id": [], "data_size": "0.627 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)": "2241302", "Number of Sequences": "1", "Longest Sequences (bp)": "2241302", "N50 (bp)": "2241302", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.0", "Number of CDSs": "2026", "Average Protein Length": "302.9", "Coding Ratio (%)": "82.1", "Number of rRNAs": "15", "Number of tRNAs": "67", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus pantholopis", "strain": "strain=TA 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"GCA_900460185.1", "taxid": 40041, "species_taxid": 1336, "relation_to_type": "type", "validated": true, "ani": 79.0608, "matched_fragments": 66, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus hyointestinalis", "strain": "strain=NCTC12224", "accession": "GCA_900459405.1", "taxid": 1337, "species_taxid": 1337, "relation_to_type": "type", "validated": true, "ani": 78.5988, "matched_fragments": 69, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus", "strain": "strain=NCTC13773", "accession": "GCA_900475715.1", "taxid": 315405, "species_taxid": 315405, "relation_to_type": "suspected-type", "validated": true, "ani": 78.3962, "matched_fragments": 95, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus subsp. gallolyticus", "strain": "strain=DSM 16831", "accession": "GCA_002000985.1", "taxid": 53354, "species_taxid": 315405, "relation_to_type": "type", "validated": true, "ani": 78.3372, "matched_fragments": 100, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus ferus", "strain": "strain=NCTC12278", "accession": "GCA_900475025.1", "taxid": 1345, "species_taxid": 1345, "relation_to_type": "type", "validated": true, "ani": 78.3298, "matched_fragments": 80, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus loxodontisalivarius", "strain": "strain=DSM 27382", "accession": "GCA_016908645.1", "taxid": 1349415, "species_taxid": 1349415, "relation_to_type": "type", "validated": true, "ani": 78.2921, "matched_fragments": 52, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus caballi", "strain": "strain=DSM 19004", "accession": "GCA_000379985.1", "taxid": 439220, "species_taxid": 439220, "relation_to_type": "type", "validated": true, "ani": 78.2915, "matched_fragments": 73, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus mutans", "strain": "strain=NCTC10449", "accession": "GCA_900475095.1", "taxid": 1309, "species_taxid": 1309, "relation_to_type": "type", "validated": true, "ani": 78.0046, "matched_fragments": 111, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus hyovaginalis", "strain": "strain=DSM 12219", "accession": "GCA_000420785.1", "taxid": 149015, "species_taxid": 149015, "relation_to_type": "type", "validated": true, "ani": 77.5028, "matched_fragments": 54, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus ferus", "strain": "strain=DSM 20646", "accession": "GCA_000372425.1", "taxid": 1345, "species_taxid": 1345, "relation_to_type": "type", "validated": true, "ani": 77.215, "matched_fragments": 75, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus mutans", "strain": "strain=DSM 20523", "accession": "GCA_000375505.1", "taxid": 1309, "species_taxid": 1309, "relation_to_type": "type", "validated": true, "ani": 77.1921, "matched_fragments": 99, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus devriesei", "strain": "strain=DSM 19639", "accession": "GCA_000423725.1", "taxid": 231233, "species_taxid": 231233, "relation_to_type": "type", "validated": true, "ani": 77.1572, "matched_fragments": 128, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus henryi", "strain": "strain=DSM 19005", "accession": "GCA_000376985.1", "taxid": 439219, "species_taxid": 439219, "relation_to_type": "type", "validated": true, "ani": 77.0212, "matched_fragments": 76, "total_fragments": 747, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001642085.1", "gtdb_species": "s__Streptococcus pantholopis", "ani": 100.0, "matched_fragments": 746, "total_fragments": 747, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_003086355.1", "gtdb_species": "s__Streptococcus chenjunshii", "ani": 82.408, "matched_fragments": 498, "total_fragments": 747, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", 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