{ "type": "genome", "identifier": "GCF_002982135.1", "organism": "Pediococcus inopinatus", "title": "Pediococcus inopinatus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kyungpook National University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002982135.1", "bioproject": "PRJNA224116", "biosample": "SAMN06447728", "wgs_master": "na", "refseq_category": "na", "taxid": "114090", "species_taxid": "114090", "organism_name": "Pediococcus inopinatus", "infraspecific_name": "strain=DSM 20285", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/08", "asm_name": "ASM298213v1", "asm_submitter": "Kyungpook National University", "gbrs_paired_asm": "GCA_002982135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/982/135/GCF_002982135.1_ASM298213v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2312041", "genome_size_ungapped": "2312041", "gc_percent": "38.500000", "replicon_count": "4", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002982135.1-RS_2024_04_27", "annotation_date": "2024-04-27", "total_gene_count": "2334", "protein_coding_gene_count": "2196", "non_coding_gene_count": "79", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-08", "dateModified": "2018-03-08", "datePublished": "2018-03-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Pediococcus inopinatus" ], "sample_taxid": [ "114090" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "0.644 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2312041", "Number of Sequences": "4", "Longest Sequences (bp)": "2137091", "N50 (bp)": "2137091", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.7", "Number of CDSs": "2283", "Average Protein Length": "289.1", "Coding Ratio (%)": "85.6", "Number of rRNAs": "12", "Number of tRNAs": "63", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pediococcus inopinatus", "strain": "strain=DSM 20285", "accession": "GCA_002982135.1", "taxid": 114090, "species_taxid": 114090, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 755, "total_fragments": 769, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pediococcus inopinatus", "strain": "strain=DSM 20285", "accession": "GCA_001438725.1", "taxid": 114090, "species_taxid": 114090, "relation_to_type": "type", "validated": true, "ani": 99.8355, "matched_fragments": 633, "total_fragments": 769, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pediococcus damnosus", "strain": "strain=DSM 20331", "accession": "GCA_001437255.1", "taxid": 51663, "species_taxid": 51663, "relation_to_type": "type", "validated": true, "ani": 83.137, "matched_fragments": 433, "total_fragments": 769, "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", "validated": true, "ani": 80.3941, "matched_fragments": 323, "total_fragments": 769, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus parvulus", "strain": "strain=NBRC 100673", "accession": "GCA_007990205.1", "taxid": 54062, "species_taxid": 54062, "relation_to_type": "type", "validated": true, "ani": 80.1239, "matched_fragments": 307, "total_fragments": 769, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus ethanolidurans", "strain": "strain=CGMCC 1.3889", "accession": "GCA_900111205.1", "taxid": 319653, "species_taxid": 319653, "relation_to_type": "type", "validated": true, "ani": 80.0647, "matched_fragments": 329, "total_fragments": 769, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus ethanolidurans", "strain": "strain=DSM 22301", "accession": "GCA_001437405.1", "taxid": 319653, "species_taxid": 319653, "relation_to_type": "type", "validated": true, "ani": 80.0318, "matched_fragments": 324, "total_fragments": 769, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pediococcus cellicola", "strain": "strain=DSM 17757", "accession": "GCA_001438655.1", "taxid": 319652, "species_taxid": 319652, "relation_to_type": "type", "validated": true, "ani": 79.8794, "matched_fragments": 277, "total_fragments": 769, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002982135.1", "gtdb_species": "s__Pediococcus inopinatus", "ani": 100.0, "matched_fragments": 759, "total_fragments": 769, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Pediococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.47", "min_intra_species_ani": "98.95", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_001437255.1", "gtdb_species": "s__Pediococcus damnosus", "ani": 83.1143, "matched_fragments": 436, "total_fragments": 769, "gtdb_taxonomy": 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactiplantibacillus", "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_001437075.1", "gtdb_species": "s__Pediococcus stilesii", "ani": 78.0645, "matched_fragments": 57, "total_fragments": 769, "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_005405445.1", "gtdb_species": "s__Paucilactobacillus nenjiangensis", "ani": 77.203, "matched_fragments": 57, "total_fragments": 769, "gtdb_taxonomy": 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