{ "type": "genome", "identifier": "GCA_004552545.1", "organism": "Lactobacillus amylovorus", "title": "Lactobacillus amylovorus", "description": "contaminated; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Alberta", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004552545.1", "bioproject": "PRJNA494875", "biosample": "SAMN10183303", "wgs_master": "SFOE00000000.1", "refseq_category": "na", "taxid": "1604", "species_taxid": "1604", "organism_name": "Lactobacillus amylovorus", "infraspecific_name": "", "isolate": "W3P12.059", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/01", "asm_name": "ASM455254v1", "submitter": "University of Alberta", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/552/545/GCA_004552545.1_ASM455254v1", "excluded_from_refseq": "contaminated; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-01", "dateModified": "2019-04-01", "datePublished": "2019-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Lactobacillus amylovorus" ], "sample_taxid": [ "1604" ], "sample_host_organism": [ "Sus scrofa" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Edmonton" ], "sample_host_location_id": [], "data_size": "0.659 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 70.83, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2305390", "Number of Sequences": "395", "Longest Sequences (bp)": "52561", "N50 (bp)": "7851", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.8", "Number of CDSs": "2164", "Average Protein Length": "258.5", "Coding Ratio (%)": "72.8", "Number of rRNAs": "1", "Number of tRNAs": "35", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactobacillus crispatus", "strain": "strain=ATCC 33820", "accession": "GCA_018987235.1", "taxid": 47770, "species_taxid": 47770, "relation_to_type": "suspected-type", "validated": true, "ani": 97.5798, "matched_fragments": 316, "total_fragments": 548, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactobacillus crispatus", "strain": "strain=DSM 20584", "accession": "GCA_001434005.1", "taxid": 47770, "species_taxid": 47770, "relation_to_type": "type", "validated": true, "ani": 97.4562, "matched_fragments": 311, "total_fragments": 548, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactobacillus crispatus", "strain": "strain=ATCC 33820", "accession": 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"relation_to_type": "type", "validated": true, "ani": 81.9285, "matched_fragments": 202, "total_fragments": 548, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus ultunensis", "strain": "strain=DSM 16047", "accession": "GCA_001436305.1", "taxid": 227945, "species_taxid": 227945, "relation_to_type": "type", "validated": true, "ani": 81.8817, "matched_fragments": 215, "total_fragments": 548, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus kefiranofaciens subsp. kefirgranum", "strain": "strain=DSM 10550", "accession": "GCA_001434195.1", "taxid": 190906, "species_taxid": 267818, "relation_to_type": "type", "validated": true, "ani": 81.4526, "matched_fragments": 215, "total_fragments": 548, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus rodentium", "strain": "strain=DSM 24759", "accession": "GCA_024622425.1", "taxid": 947835, "species_taxid": 947835, "relation_to_type": "type", 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"ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "97.84", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.84", "num_clustered_genomes": 17, "status": "-" }, { "accession": "GCF_000615285.1", "gtdb_species": "s__Lactobacillus kitasatonis", "ani": 82.9064, "matched_fragments": 210, "total_fragments": 548, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "97.76", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002706375.1", "gtdb_species": "s__Lactobacillus amylovorus", "ani": 82.5947, "matched_fragments": 226, "total_fragments": 548, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, 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"min_intra_species_ani": "99.95", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001591845.1", "gtdb_species": "s__Lactobacillus acidophilus", "ani": 81.7046, "matched_fragments": 206, "total_fragments": 548, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.12", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.94", "num_clustered_genomes": 59, "status": "-" }, { "accession": "GCF_900103655.1", "gtdb_species": "s__Lactobacillus kefiranofaciens", "ani": 81.4836, "matched_fragments": 210, "total_fragments": 548, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.62", "min_intra_species_ani": "99.18", 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