{ "type": "genome", "identifier": "GCF_001708305.1", "organism": "Streptococcus himalayensis", "title": "Streptococcus himalayensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute for Communicable Disease Control and Prevention, China CDC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001708305.1", "bioproject": "PRJNA224116", "biosample": "SAMN05560386", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1888195", "species_taxid": "1888195", "organism_name": "Streptococcus himalayensis", "infraspecific_name": "strain=HTS2", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/08/23", "asm_name": "ASM170830v1", "asm_submitter": "National Institute for Communicable Disease Control and Prevention, China CDC", "gbrs_paired_asm": "GCA_001708305.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/708/305/GCF_001708305.1_ASM170830v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2275471", "genome_size_ungapped": "2275471", "gc_percent": "41.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001708305.1-RS_2024_11_06", "annotation_date": "2024-11-06", "total_gene_count": "2164", "protein_coding_gene_count": "2026", "non_coding_gene_count": "72", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-08-23", "dateModified": "2016-08-23", "datePublished": "2016-08-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus himalayensis" ], "sample_taxid": [ "1888195" ], "sample_host_organism": [ "marmota" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "0.635 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 37.0, "max": 37.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2275471", "Number of Sequences": "1", "Longest Sequences (bp)": "2275471", "N50 (bp)": "2275471", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.3", "Number of CDSs": "2116", "Average Protein Length": "308.6", "Coding Ratio (%)": "86.1", "Number of rRNAs": "12", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus himalayensis", "strain": "strain=HTS2", "accession": "GCA_001708305.1", "taxid": 1888195, "species_taxid": 1888195, 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"total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus cristatus", "strain": "strain=ATCC 51100", "accession": "GCA_011612585.1", "taxid": 45634, "species_taxid": 45634, "relation_to_type": "type", "validated": true, "ani": 79.5375, "matched_fragments": 144, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus toyakuensis", "strain": "strain=TP1632", "accession": "GCA_024346585.1", "taxid": 2819619, "species_taxid": 2819619, "relation_to_type": "type", "validated": true, "ani": 79.5278, "matched_fragments": 136, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus parasanguinis", "strain": "strain=NCTC12854", "accession": "GCA_900459355.1", "taxid": 1318, "species_taxid": 1318, "relation_to_type": "suspected-type", "validated": true, "ani": 79.4492, "matched_fragments": 148, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus australis", "strain": "strain=ATCC 700641", "accession": "GCA_000222745.2", "taxid": 113107, "species_taxid": 113107, "relation_to_type": "type", "validated": true, "ani": 79.4303, "matched_fragments": 119, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus timonensis", "strain": "strain=Marseille-P2915", "accession": "GCA_900095845.1", "taxid": 1852387, "species_taxid": 1852387, "relation_to_type": "type", "validated": true, "ani": 79.3573, "matched_fragments": 125, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus constellatus subsp. constellatus", "strain": "strain=CCUG 24889", "accession": "GCA_023167545.1", "taxid": 184246, "species_taxid": 76860, "relation_to_type": "type", "validated": true, "ani": 79.2402, "matched_fragments": 137, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus anginosus", "strain": "strain=NCTC10713", "accession": "GCA_900636475.1", "taxid": 1328, "species_taxid": 1328, "relation_to_type": "type", "validated": true, "ani": 79.0713, "matched_fragments": 149, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus australis", "strain": "strain=ATCC 700641", "accession": "GCA_000186465.1", "taxid": 113107, "species_taxid": 113107, "relation_to_type": "type", "validated": true, "ani": 79.0286, "matched_fragments": 116, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus chosunense", "strain": "strain=ChDC B353", "accession": "GCA_003626515.1", "taxid": 2707003, "species_taxid": 2707003, "relation_to_type": "type", "validated": true, "ani": 78.7867, "matched_fragments": 137, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus xiaochunlingii", "strain": "strain=E24", "accession": "GCA_006385805.1", "taxid": 2589788, "species_taxid": 2589788, "relation_to_type": "type", "validated": true, "ani": 78.7691, "matched_fragments": 132, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus anginosus", "strain": "strain=ATCC 33397", "accession": "GCA_002088025.1", "taxid": 1328, "species_taxid": 1328, "relation_to_type": "type", "validated": true, "ani": 78.6425, "matched_fragments": 141, "total_fragments": 758, "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": 78.5324, "matched_fragments": 138, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus anginosus", "strain": "strain=SK52", "accession": "GCA_000214555.2", "taxid": 1328, "species_taxid": 1328, "relation_to_type": "type", "validated": true, "ani": 78.4773, "matched_fragments": 138, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus saliviloxodontae", "strain": "strain=DSM 27513", "accession": "GCA_016908655.1", "taxid": 1349416, "species_taxid": 1349416, "relation_to_type": "type", "validated": true, "ani": 78.3421, "matched_fragments": 83, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equi subsp. ruminatorum", "strain": "strain=CECT 5772", "accession": "GCA_000706805.1", "taxid": 254358, "species_taxid": 1336, "relation_to_type": "type", "validated": true, "ani": 78.0007, "matched_fragments": 73, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001708305.1", "gtdb_species": "s__Streptococcus himalayensis", "ani": 100.0, "matched_fragments": 755, "total_fragments": 758, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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": 2, "status": "conclusive" }, { "accession": "GCF_001623565.1", "gtdb_species": "s__Streptococcus marmotae", "ani": 88.7297, "matched_fragments": 305, "total_fragments": 758, "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": "-" }, { "accession": "GCF_017639855.1", "gtdb_species": 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