{ "type": "genome", "identifier": "GCA_022641845.1", "organism": "Pediococcus pentosaceus", "title": "Pediococcus pentosaceus", "description": "derived from metagenome; genome length too small", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022641845.1", "bioproject": "PRJNA768555", "biosample": "SAMN22412575", "wgs_master": "JALCDT000000000.1", "refseq_category": "na", "taxid": "1255", "species_taxid": "1255", "organism_name": "Pediococcus pentosaceus", "infraspecific_name": "", "isolate": "UW_TS_PED2_7", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/03/21", "asm_name": "ASM2264184v1", "submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/641/845/GCA_022641845.1_ASM2264184v1", "excluded_from_refseq": "derived from metagenome; genome length too small", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-03-21", "dateModified": "2022-03-21", "datePublished": "2022-03-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Pediococcus pentosaceus" ], "sample_taxid": [ "1255" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Madison, WI", "Freezer" ], "sample_host_location_id": [], "data_size": "0.385 MB", "sample_ph_range": { "min": 555.0, "max": 555.0 }, "sample_temperature_range": { "min": 35.0, "max": 80.0 }, "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1350879", "Number of Sequences": "49", "Longest Sequences (bp)": "121403", "N50 (bp)": "41064", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.2", "Number of CDSs": "1286", "Average Protein Length": "304.8", "Coding Ratio (%)": "87.0", "Number of rRNAs": "1", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pediococcus pentosaceus", "strain": "strain=FDAARGOS_1009", "accession": "GCA_016127775.1", "taxid": 1255, "species_taxid": 1255, "relation_to_type": "type", "validated": true, "ani": 99.426, "matched_fragments": 405, "total_fragments": 425, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pediococcus pentosaceus", "strain": "strain=DSM 20336", "accession": "GCA_001437285.1", "taxid": 1255, "species_taxid": 1255, "relation_to_type": "type", "validated": true, "ani": 99.3797, "matched_fragments": 402, "total_fragments": 425, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pediococcus pentosaceus", "strain": "strain=ATCC 33316", "accession": "GCA_004354495.1", "taxid": 1255, "species_taxid": 1255, "relation_to_type": "type", "validated": true, "ani": 99.324, "matched_fragments": 407, "total_fragments": 425, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Companilactobacillus pabuli", "strain": "strain=NFFJ11", "accession": "GCA_014058425.1", "taxid": 2714036, "species_taxid": 2714036, "relation_to_type": "type", "validated": true, "ani": 79.9701, "matched_fragments": 51, "total_fragments": 425, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus acidilactici", "strain": "strain=CCUG 32235", "accession": "GCA_012396515.1", "taxid": 1254, "species_taxid": 1254, "relation_to_type": "neotype", "validated": true, "ani": 79.9276, "matched_fragments": 160, "total_fragments": 425, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus acidilactici", "strain": "strain=DSM 20284", "accession": "GCA_000146325.1", "taxid": 1254, "species_taxid": 1254, "relation_to_type": "neotype", "validated": true, "ani": 79.8291, "matched_fragments": 160, "total_fragments": 425, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus argentinicus", "strain": "strain=DSM 23026", "accession": "GCA_001437605.1", "taxid": 480391, "species_taxid": 480391, "relation_to_type": "type", "validated": true, "ani": 78.96, "matched_fragments": 111, "total_fragments": 425, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus argentinicus", "strain": "strain=CCUG 54535", "accession": "GCA_012396535.1", "taxid": 480391, "species_taxid": 480391, "relation_to_type": "type", "validated": true, "ani": 78.9548, "matched_fragments": 111, "total_fragments": 425, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus parvulus", "strain": "strain=JCM 5889", "accession": "GCA_014651215.1", "taxid": 54062, "species_taxid": 54062, "relation_to_type": "type", 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"num_clustered_genomes": 75, "status": "conclusive" }, { "accession": "GCF_001437075.1", "gtdb_species": "s__Pediococcus stilesii", "ani": 80.5927, "matched_fragments": 207, "total_fragments": 425, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Pediococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.68", "min_intra_species_ani": "97.68", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014058425.1", "gtdb_species": "s__Companilactobacillus pabuli", "ani": 79.9701, "matched_fragments": 51, "total_fragments": 425, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Companilactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "98.09", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.87", "num_clustered_genomes": 5, "status": 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