{ "type": "genome", "identifier": "GCF_900104595.1", "organism": "Enterococcus timonensis", "title": "Enterococcus timonensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900104595.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4519250", "wgs_master": "FNVY00000000.1", "refseq_category": "reference genome", "taxid": "1852364", "species_taxid": "1852364", "organism_name": "Enterococcus timonensis", "infraspecific_name": "strain=Marseille-P2817T", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/27", "asm_name": "PRJEB16349", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900104595.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/104/595/GCF_900104595.1_PRJEB16349", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2123933", "genome_size_ungapped": "2123933", "gc_percent": "38.500000", "replicon_count": "0", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-01-29", "total_gene_count": "2057", "protein_coding_gene_count": "1964", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-27", "dateModified": "2016-10-27", "datePublished": "2016-10-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus timonensis" ], "sample_taxid": [ "1852364" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.596 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)": "2123933", "Number of Sequences": "4", "Longest Sequences (bp)": "1157085", "N50 (bp)": "1157085", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.5", "Number of CDSs": "2001", "Average Protein Length": "311.4", "Coding Ratio (%)": "88.0", "Number of rRNAs": "9", "Number of tRNAs": "56", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus timonensis", "strain": "strain=Marseille-P2817", "accession": "GCA_900104595.1", "taxid": 1852364, "species_taxid": 1852364, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 705, "total_fragments": 706, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus saigonensis", "strain": "strain=VE80", "accession": "GCA_011397115.1", "taxid": 1805431, "species_taxid": 1805431, "relation_to_type": "type", "validated": true, "ani": 80.0538, "matched_fragments": 89, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus malodoratus", "strain": "strain=DSM 20681", "accession": "GCA_001886025.1", "taxid": 71451, "species_taxid": 71451, "relation_to_type": "type", "validated": true, "ani": 78.2819, "matched_fragments": 55, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus pallens", "strain": "strain=ATCC BAA-351", "accession": "GCA_000393975.1", "taxid": 160454, "species_taxid": 160454, "relation_to_type": "type", "validated": true, "ani": 78.1959, "matched_fragments": 62, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus haemoperoxidus", "strain": "strain=ATCC BAA-382", "accession": "GCA_000393995.1", "taxid": 155618, "species_taxid": 155618, "relation_to_type": "type", "validated": true, "ani": 78.17, "matched_fragments": 66, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus nangangensis", "strain": "strain=94-2", "accession": "GCA_005405245.1", "taxid": 2559926, "species_taxid": 2559926, "relation_to_type": "type", "validated": true, "ani": 78.1134, "matched_fragments": 136, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus haemoperoxidus", "strain": "strain=ATCC BAA-382", "accession": "GCA_000407165.1", "taxid": 155618, "species_taxid": 155618, "relation_to_type": "type", "validated": true, "ani": 77.7936, "matched_fragments": 71, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus villorum", "strain": "strain=NBRC 100699", "accession": "GCA_007990225.1", "taxid": 112904, "species_taxid": 112904, "relation_to_type": "type", "validated": true, "ani": 77.0056, "matched_fragments": 56, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus silesiacus", "strain": "strain=DSM 22801", "accession": "GCA_001886225.1", "taxid": 332949, "species_taxid": 332949, "relation_to_type": "type", "validated": true, "ani": 76.9616, "matched_fragments": 63, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus haemoperoxidus", "strain": "strain=DSM 15920", "accession": "GCA_001885985.1", "taxid": 155618, "species_taxid": 155618, "relation_to_type": "type", "validated": true, "ani": 76.9248, "matched_fragments": 66, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus ratti", "strain": "strain=DSM 15687", "accession": "GCA_001886195.1", "taxid": 150033, "species_taxid": 150033, "relation_to_type": "type", "validated": true, "ani": 76.7418, "matched_fragments": 55, "total_fragments": 706, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900104595.1", "gtdb_species": "s__Enterococcus_J timonensis", "ani": 100.0, "matched_fragments": 705, "total_fragments": 706, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_J", "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_011397115.1", "gtdb_species": "s__Enterococcus_C saigonensis", "ani": 79.713, "matched_fragments": 88, "total_fragments": 706, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "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_002140175.1", "gtdb_species": "s__Enterococcus_B sp002140175", "ani": 79.0478, "matched_fragments": 52, "total_fragments": 706, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "99.33", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005405265.1", "gtdb_species": "s__Enterococcus_C songbeiensis", "ani": 78.7813, "matched_fragments": 71, "total_fragments": 706, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.82", "min_intra_species_ani": "98.68", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_005405245.1", "gtdb_species": "s__Enterococcus_J nangangensis", "ani": 78.1134, "matched_fragments": 136, "total_fragments": 706, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_J", "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": "GCA_019115705.1", "gtdb_species": "s__Tetragenococcus pullicola", "ani": 77.8518, "matched_fragments": 55, "total_fragments": 706, "gtdb_taxonomy": 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