{ "type": "genome", "identifier": "GCF_024199905.1", "organism": "Rothia santali", "title": "Rothia santali", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Centre for Cell Science", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024199905.1", "bioproject": "PRJNA224116", "biosample": "SAMN28765923", "wgs_master": "JANAFB000000000.1", "refseq_category": "reference genome", "taxid": "2949643", "species_taxid": "2949643", "organism_name": "Rothia santali", "infraspecific_name": "strain=AR01", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/07/10", "asm_name": "ASM2419990v1", "asm_submitter": "National Centre for Cell Science", "gbrs_paired_asm": "GCA_024199905.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/199/905/GCF_024199905.1_ASM2419990v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3305617", "genome_size_ungapped": "3305607", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "84", "contig_count": "84", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024199905.1-RS_2024_09_08", "annotation_date": "2024-09-08", "total_gene_count": "3062", "protein_coding_gene_count": "2890", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-07-10", "dateModified": "2022-07-10", "datePublished": "2022-07-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Rothia santali" ], "sample_taxid": [ "2949643" ], "sample_host_organism": [ "Santalum album" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "India:Marayoor" ], "sample_host_location_id": [], "data_size": "0.890 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)": "3305617", "Number of Sequences": "84", "Longest Sequences (bp)": "220631", "N50 (bp)": "75067", "Gap Ratio (%)": "0.000303", "GCcontent (%)": "71.8", "Number of CDSs": "2968", "Average Protein Length": "315.3", "Coding Ratio (%)": "84.9", "Number of rRNAs": "7", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rothia kristinae", "strain": "strain=FDAARGOS_864", "accession": "GCA_016028855.1", "taxid": 37923, "species_taxid": 37923, "relation_to_type": "type", "validated": true, "ani": 81.2808, "matched_fragments": 474, "total_fragments": 1060, 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1060, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas palmilytica", "strain": "strain=EW123", "accession": "GCA_021590045.1", "taxid": 2608402, "species_taxid": 2608402, "relation_to_type": "type", "validated": true, "ani": 77.0366, "matched_fragments": 248, "total_fragments": 1060, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004136635.1", "gtdb_species": "s__Rothia halotolerans", "ani": 87.4863, "matched_fragments": 769, "total_fragments": 1060, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Rothia", "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_001570865.1", "gtdb_species": 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