{ "type": "genome", "identifier": "GCF_019218635.1", "organism": "Enterococcus alishanensis", "title": "Enterococcus alishanensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ming Chuan University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019218635.1", "bioproject": "PRJNA224116", "biosample": "SAMN19878291", "wgs_master": "JAHUZB000000000.1", "refseq_category": "reference genome", "taxid": "1303817", "species_taxid": "1303817", "organism_name": "Enterococcus alishanensis", "infraspecific_name": "strain=ALS3", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/14", "asm_name": "ASM1921863v1", "asm_submitter": "Ming Chuan University", "gbrs_paired_asm": "GCA_019218635.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/218/635/GCF_019218635.1_ASM1921863v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3731072", "genome_size_ungapped": "3731072", "gc_percent": "35.500000", "replicon_count": "0", "scaffold_count": "50", "contig_count": "50", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019218635.1-RS_2024_05_06", "annotation_date": "2024-05-06", "total_gene_count": "3659", "protein_coding_gene_count": "3539", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-07-14", "dateModified": "2021-07-14", "datePublished": "2021-07-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus alishanensis" ], "sample_taxid": [ "1303817" ], "sample_host_organism": [ "Coffea arabica" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Taiwan: Chiayi" ], "sample_host_location_id": [], "data_size": "1.047 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)": "3731072", "Number of Sequences": "50", "Longest Sequences (bp)": "762141", "N50 (bp)": "670361", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.6", "Number of CDSs": "3604", "Average Protein Length": "301.5", "Coding Ratio (%)": "87.4", "Number of rRNAs": "2", "Number of tRNAs": "55", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus alishanensis", "strain": "strain=ALS3", "accession": "GCA_019218635.1", "taxid": 1303817, "species_taxid": 1303817, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1224, "total_fragments": 1225, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus viikkiensis", "strain": "strain=LMG 26075", "accession": "GCA_005405345.1", "taxid": 930854, "species_taxid": 930854, "relation_to_type": "type", "validated": true, "ani": 78.5601, "matched_fragments": 174, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus xiangfangensis", "strain": "strain=11097", "accession": "GCA_005405365.1", "taxid": 1296537, "species_taxid": 1296537, "relation_to_type": "type", "validated": true, "ani": 78.4121, "matched_fragments": 183, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus pingfangensis", "strain": "strain=241-2-2", "accession": "GCA_005405205.1", "taxid": 2559924, "species_taxid": 2559924, "relation_to_type": "type", "validated": true, "ani": 78.3486, "matched_fragments": 162, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus devriesei", "strain": "strain=DSM 22802", "accession": "GCA_001885905.1", "taxid": 319970, "species_taxid": 319970, "relation_to_type": "type", "validated": true, "ani": 78.2915, "matched_fragments": 184, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus canis", "strain": "strain=NBRC 100695", "accession": "GCA_001544375.1", "taxid": 214095, "species_taxid": 214095, "relation_to_type": "type", "validated": true, "ani": 78.2322, "matched_fragments": 79, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus canis", "strain": "strain=DSM 17029", "accession": "GCA_001885805.1", "taxid": 214095, "species_taxid": 214095, "relation_to_type": "type", "validated": true, "ani": 78.2233, "matched_fragments": 81, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus malodoratus", "strain": "strain=ATCC 43197", "accession": "GCA_000393875.1", "taxid": 71451, "species_taxid": 71451, "relation_to_type": "type", "validated": true, "ani": 78.2013, "matched_fragments": 213, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gilvus", "strain": "strain=ATCC BAA-350", "accession": "GCA_000394615.1", "taxid": 160453, "species_taxid": 160453, "relation_to_type": "type", "validated": true, "ani": 78.1565, "matched_fragments": 182, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dongliensis", "strain": "strain=63-4", "accession": "GCA_005405225.1", "taxid": 2559925, "species_taxid": 2559925, "relation_to_type": "type", "validated": true, "ani": 78.1559, "matched_fragments": 160, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gilvus", "strain": "strain=ATCC BAA-350", "accession": "GCA_000407545.1", "taxid": 160453, "species_taxid": 160453, "relation_to_type": "type", "validated": true, "ani": 78.1461, "matched_fragments": 184, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gilvus", "strain": "strain=DSM 15689", "accession": "GCA_001885915.1", "taxid": 160453, "species_taxid": 160453, "relation_to_type": "type", "validated": true, "ani": 78.142, "matched_fragments": 178, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus malodoratus", "strain": "strain=ATCC 43197", "accession": "GCA_000407185.1", "taxid": 71451, "species_taxid": 71451, "relation_to_type": "type", "validated": true, "ani": 78.0924, "matched_fragments": 214, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus malodoratus", "strain": "strain=NCTC12365", "accession": "GCA_900447955.1", "taxid": 71451, "species_taxid": 71451, "relation_to_type": "type", "validated": true, "ani": 78.0695, "matched_fragments": 210, "total_fragments": 1225, "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": 78.0575, "matched_fragments": 205, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus lactis", "strain": "strain=LMG 25958", "accession": "GCA_015904215.1", "taxid": 357441, "species_taxid": 357441, "relation_to_type": "type", "validated": true, "ani": 78.0488, "matched_fragments": 88, "total_fragments": 1225, "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": 78.0052, "matched_fragments": 92, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=DSM 20680", "accession": "GCA_001885845.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 77.8312, "matched_fragments": 82, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecium", "strain": "strain=NCTC7171", "accession": "GCA_900447735.1", "taxid": 1352, "species_taxid": 1352, "relation_to_type": "type", "validated": true, "ani": 77.6878, "matched_fragments": 99, "total_fragments": 1225, "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": 77.5985, "matched_fragments": 112, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus saigonensis", "strain": "strain=VE80", "accession": "GCA_011397115.1", "taxid": 1805431, "species_taxid": 1805431, "relation_to_type": "type", "validated": true, "ani": 77.4936, "matched_fragments": 128, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus faecium", "strain": "strain=NBRC 100486", "accession": "GCA_001544255.1", "taxid": 1352, "species_taxid": 1352, "relation_to_type": "type", "validated": true, "ani": 77.4824, "matched_fragments": 95, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vagococcus xieshaowenii", "strain": "strain=personal::cf-49", "accession": "GCA_004792515.1", "taxid": 2562451, "species_taxid": 2562451, "relation_to_type": "type", "validated": true, "ani": 77.2797, "matched_fragments": 56, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vagococcus allomyrinae", "strain": "strain=BWB3-3", "accession": "GCA_017829975.1", "taxid": 2794353, "species_taxid": 2794353, "relation_to_type": "type", "validated": true, "ani": 77.1504, "matched_fragments": 64, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vagococcus carniphilus", "strain": "strain=ATCC BAA-640", "accession": "GCA_014397115.1", "taxid": 218144, "species_taxid": 218144, "relation_to_type": "type", "validated": true, "ani": 76.7408, "matched_fragments": 91, "total_fragments": 1225, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_019218635.1", "gtdb_species": "s__Enterococcus_A sp019218635", "ani": 100.0, "matched_fragments": 1224, "total_fragments": 1225, "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": "conclusive" }, { "accession": "GCF_005405345.1", "gtdb_species": "s__Enterococcus_A viikkiensis", "ani": 78.5601, "matched_fragments": 174, "total_fragments": 1225, "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_005405365.1", "gtdb_species": "s__Enterococcus_A xiangfangensis", "ani": 78.4121, "matched_fragments": 183, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_005405205.1", "gtdb_species": "s__Enterococcus_A pingfangensis", "ani": 78.3711, "matched_fragments": 161, "total_fragments": 1225, "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_001885905.1", "gtdb_species": "s__Enterococcus_A devriesei", "ani": 78.2915, "matched_fragments": 184, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "98.05", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001544375.1", "gtdb_species": "s__Enterococcus_H canis", "ani": 78.2322, "matched_fragments": 79, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_H", "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_001885945.1", "gtdb_species": "s__Enterococcus_A hermanniensis", "ani": 78.1848, "matched_fragments": 206, "total_fragments": 1225, "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_000407545.1", "gtdb_species": "s__Enterococcus_A gilvus", "ani": 78.145, "matched_fragments": 183, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_005405225.1", "gtdb_species": "s__Enterococcus_A dongliensis", "ani": 78.1328, "matched_fragments": 161, "total_fragments": 1225, "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_000407185.1", "gtdb_species": "s__Enterococcus_A malodoratus", "ani": 78.0923, "matched_fragments": 214, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "98.27", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.84", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_018917525.1", "gtdb_species": "s__Enterococcus_A raffinosus_A", "ani": 78.0551, "matched_fragments": 192, "total_fragments": 1225, "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_001886185.1", "gtdb_species": "s__Enterococcus_A raffinosus", "ani": 78.0547, "matched_fragments": 192, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCF_000407485.1", "gtdb_species": "s__Enterococcus_A pallens", "ani": 77.9802, "matched_fragments": 228, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_017315985.1", "gtdb_species": "s__Enterococcus_A sp017315985", "ani": 77.9727, "matched_fragments": 200, "total_fragments": 1225, "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_001544095.1", "gtdb_species": "s__Enterococcus_D casseliflavus", "ani": 77.8933, "matched_fragments": 79, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "95.35", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 83, "status": "-" }, { "accession": "GCF_001544255.1", "gtdb_species": "s__Enterococcus_B faecium", "ani": 77.5453, "matched_fragments": 93, "total_fragments": 1225, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.30", "min_intra_species_ani": "98.03", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.72", "num_clustered_genomes": 2177, "status": "-" }, { "accession": "GCF_011397115.1", "gtdb_species": "s__Enterococcus_C saigonensis", "ani": 77.5154, "matched_fragments": 127, "total_fragments": 1225, "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_009933335.1", "gtdb_species": "s__Enterococcus_F sp009933335", "ani": 77.4844, "matched_fragments": 124, 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