{ "type": "genome", "identifier": "GCF_016909125.1", "organism": "Enterococcus lemanii", "title": "Enterococcus lemanii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016909125.1", "bioproject": "PRJNA224116", "biosample": "SAMN17620067", "wgs_master": "JAFBFD000000000.1", "refseq_category": "reference genome", "taxid": "1159752", "species_taxid": "1159752", "organism_name": "Enterococcus lemanii", "infraspecific_name": "strain=DSM 105069", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/19", "asm_name": "ASM1690912v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_016909125.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/909/125/GCF_016909125.1_ASM1690912v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2720315", "genome_size_ungapped": "2720315", "gc_percent": "37.000000", "replicon_count": "0", "scaffold_count": "74", "contig_count": "74", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016909125.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2622", "protein_coding_gene_count": "2503", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-19", "dateModified": "2021-02-19", "datePublished": "2021-02-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus lemanii" ], "sample_taxid": [ "1159752" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.771 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)": "2720315", "Number of Sequences": "74", "Longest Sequences (bp)": "164738", "N50 (bp)": "52485", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.2", "Number of CDSs": "2554", "Average Protein Length": "310.5", "Coding Ratio (%)": "87.5", "Number of rRNAs": "2", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus alcedinis", "strain": "strain=CCM 8433", "accession": "GCA_014635985.1", "taxid": 1274384, "species_taxid": 1274384, "relation_to_type": "type", "validated": true, "ani": 78.6062, "matched_fragments": 267, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hermanniensis", "strain": "strain=DSM 17122", "accession": "GCA_001885945.1", "taxid": 249189, "species_taxid": 249189, "relation_to_type": "type", "validated": true, "ani": 78.5826, "matched_fragments": 75, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus aquimarinus", "strain": "strain=DSM 17690", "accession": "GCA_001885765.1", "taxid": 328396, "species_taxid": 328396, "relation_to_type": "type", "validated": true, "ani": 78.5547, "matched_fragments": 262, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus saccharolyticus subsp. saccharolyticus", "strain": "strain=ATCC 43076", "accession": "GCA_000407005.1", "taxid": 1814218, "species_taxid": 41997, "relation_to_type": "type", "validated": true, "ani": 78.4149, "matched_fragments": 178, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dispar", "strain": "strain=ATCC 51266", "accession": "GCA_000406945.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 78.3682, "matched_fragments": 115, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus saccharolyticus subsp. saccharolyticus", "strain": "strain=ATCC 43076", "accession": "GCA_000407285.1", "taxid": 1814218, "species_taxid": 41997, "relation_to_type": "type", "validated": true, "ani": 78.3475, "matched_fragments": 180, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus saccharolyticus", "strain": "strain=DSM 20726", "accession": "GCA_001886235.1", "taxid": 41997, "species_taxid": 41997, "relation_to_type": "type", "validated": true, "ani": 78.1879, "matched_fragments": 178, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dispar", "strain": "strain=ATCC 51266", "accession": "GCA_000407585.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 78.1788, "matched_fragments": 116, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus sulfureus", "strain": "strain=ATCC 49903", "accession": "GCA_000407605.1", "taxid": 1356, "species_taxid": 1356, "relation_to_type": "type", "validated": true, "ani": 78.1524, "matched_fragments": 109, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dispar", "strain": "strain=DSM 6630", "accession": "GCA_001886105.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 78.1458, "matched_fragments": 112, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus sulfureus", "strain": "strain=ATCC 49903", "accession": "GCA_000407025.1", "taxid": 1356, "species_taxid": 1356, "relation_to_type": "type", "validated": true, "ani": 78.1082, "matched_fragments": 107, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=PartL-Efaecalis-RM8376", "accession": "GCA_022869705.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 77.9914, "matched_fragments": 102, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus columbae", "strain": "strain=ATCC 51263", "accession": "GCA_000406925.1", "taxid": 1355, "species_taxid": 1355, "relation_to_type": "type", "validated": true, "ani": 77.9795, "matched_fragments": 121, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=ATCC 19433", "accession": "GCA_000392875.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 77.9576, "matched_fragments": 109, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus columbae", "strain": "strain=ATCC 51263", "accession": "GCA_000407225.1", "taxid": 1355, "species_taxid": 1355, "relation_to_type": "type", "validated": true, "ani": 77.9232, "matched_fragments": 123, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus lactis", "strain": "strain=CCM 8412", "accession": "GCA_015751045.1", "taxid": 357441, "species_taxid": 357441, "relation_to_type": "type", "validated": true, "ani": 77.8882, "matched_fragments": 85, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus columbae", "strain": "strain=DSM 7374", "accession": "GCA_000373065.1", "taxid": 1355, "species_taxid": 1355, "relation_to_type": "type", "validated": true, "ani": 77.8559, "matched_fragments": 117, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus columbae", "strain": "strain=DSM 7374", "accession": "GCA_001885835.1", "taxid": 1355, "species_taxid": 1355, "relation_to_type": "type", "validated": true, "ani": 77.7915, "matched_fragments": 115, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=ATCC 9790", "accession": "GCA_000407425.1", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 77.7684, "matched_fragments": 88, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=ATCC 9790", "accession": "GCA_000271405.2", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 77.7464, "matched_fragments": 90, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=NBRC 100480", "accession": "GCA_001544235.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 77.7005, "matched_fragments": 106, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus italicus", "strain": "strain=DSM 15952", "accession": "GCA_001885995.1", "taxid": 246144, "species_taxid": 246144, "relation_to_type": "type", "validated": true, "ani": 77.6184, "matched_fragments": 104, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecalis", "strain": "strain=NCTC 775", "accession": "GCA_015311765.1", "taxid": 1351, "species_taxid": 1351, "relation_to_type": "type", "validated": true, "ani": 77.6101, "matched_fragments": 104, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus moraviensis", "strain": "strain=DSM 15919", "accession": "GCA_001886065.1", "taxid": 155617, "species_taxid": 155617, "relation_to_type": "type", "validated": true, "ani": 77.5953, "matched_fragments": 95, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tetragenococcus halophilus subsp. halophilus", "strain": "strain=DSM 20339", "accession": "GCA_003841405.1", "taxid": 1513897, "species_taxid": 51669, "relation_to_type": "type", "validated": true, "ani": 77.4877, "matched_fragments": 67, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus moraviensis", "strain": "strain=ATCC BAA-383", "accession": "GCA_000394015.1", "taxid": 155617, "species_taxid": 155617, "relation_to_type": "type", "validated": true, "ani": 77.4861, "matched_fragments": 96, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vagococcus hydrophili", "strain": "strain=HDW17B", "accession": "GCA_011304195.1", "taxid": 2714947, "species_taxid": 2714947, "relation_to_type": "type", "validated": true, "ani": 77.198, "matched_fragments": 69, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tetragenococcus halophilus subsp. flandriensis", "strain": "strain=DSM 23766", "accession": "GCA_002922845.1", "taxid": 1513898, "species_taxid": 51669, "relation_to_type": "type", "validated": true, "ani": 76.9703, "matched_fragments": 71, "total_fragments": 869, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016909125.1", "gtdb_species": "s__Enterococcus_I lemanii", "ani": 100.0, "matched_fragments": 863, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_I", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "98.21", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_005405265.1", "gtdb_species": "s__Enterococcus_C songbeiensis", "ani": 80.3732, "matched_fragments": 87, "total_fragments": 869, "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_017315945.1", "gtdb_species": "s__Enterococcus_B sp017315945", "ani": 79.0257, "matched_fragments": 122, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "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_014635985.1", "gtdb_species": "s__Enterococcus_I alcedinis", "ani": 78.6123, "matched_fragments": 266, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_I", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001885945.1", "gtdb_species": "s__Enterococcus_A hermanniensis", "ani": 78.5826, "matched_fragments": 75, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "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_001885765.1", "gtdb_species": "s__Enterococcus_I aquimarinus", "ani": 78.5701, "matched_fragments": 261, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_I", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.10", "min_intra_species_ani": "98.04", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000406945.1", "gtdb_species": "s__Enterococcus_C dispar", "ani": 78.3661, "matched_fragments": 114, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "99.21", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000407285.1", "gtdb_species": "s__Enterococcus_F saccharolyticus", "ani": 78.348, "matched_fragments": 180, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_F", "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": 3, "status": "-" }, { "accession": "GCA_019116505.1", "gtdb_species": "s__Enterococcus_I avicola", "ani": 78.2733, "matched_fragments": 226, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_I", "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_016908885.1", "gtdb_species": "s__Enterococcus_C diestrammenae", "ani": 78.2343, "matched_fragments": 71, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.93", "min_intra_species_ani": "97.75", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000407605.1", "gtdb_species": "s__Enterococcus_G sulfureus", "ani": 78.1826, "matched_fragments": 107, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_G", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_017426705.1", "gtdb_species": "s__Enterococcus_F sp017426705", "ani": 78.1072, "matched_fragments": 189, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_F", "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_000185365.1", "gtdb_species": "s__Enterococcus_G italicus", "ani": 78.0625, "matched_fragments": 106, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_G", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "97.28", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000406925.1", "gtdb_species": "s__Enterococcus_E columbae", "ani": 78.0077, "matched_fragments": 120, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.97", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000392875.1", "gtdb_species": "s__Enterococcus faecalis", "ani": 77.9576, "matched_fragments": 109, "total_fragments": 869, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.66", "min_intra_species_ani": "96.80", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.77", "num_clustered_genomes": 1902, "status": "-" }, { "accession": "GCF_017316305.1", "gtdb_species": "s__Enterococcus_B sp017316305", "ani": 77.8976, 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