{ "type": "genome", "identifier": "GCF_009882985.1", "organism": "Paenibacillus silvestris", "title": "Paenibacillus silvestris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chung-Ang University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009882985.1", "bioproject": "PRJNA224116", "biosample": "SAMN13558515", "wgs_master": "WTUZ00000000.1", "refseq_category": "reference genome", "taxid": "2606219", "species_taxid": "2606219", "organism_name": "Paenibacillus silvestris", "infraspecific_name": "strain=5J-6", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/14", "asm_name": "ASM988298v1", "asm_submitter": "Chung-Ang University", "gbrs_paired_asm": "GCA_009882985.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/882/985/GCF_009882985.1_ASM988298v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8179699", "genome_size_ungapped": "8178671", "gc_percent": "46.000000", "replicon_count": "0", "scaffold_count": "40", "contig_count": "40", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009882985.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "7209", "protein_coding_gene_count": "7022", "non_coding_gene_count": "144", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-14", "dateModified": "2020-01-14", "datePublished": "2020-01-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Paenibacillus silvestris" ], "sample_taxid": [ "2606219" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "2.338 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "8179699", "Number of Sequences": "40", "Longest Sequences (bp)": "1397309", "N50 (bp)": "757597", "Gap Ratio (%)": "0.013619", "GCcontent (%)": "46.1", "Number of CDSs": "7076", "Average Protein Length": "341.2", "Coding Ratio (%)": "88.6", "Number of rRNAs": "5", "Number of tRNAs": "107", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paenibacillus silvestris", "strain": "strain=5J-6", "accession": "GCA_009882985.1", "taxid": 2606219, "species_taxid": 2606219, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2706, "total_fragments": 2710, "ani_threshold": 95, 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"Paenibacillus planticolens", "strain": "strain=LMG 31457", "accession": "GCA_013141725.1", "taxid": 2654976, "species_taxid": 2654976, "relation_to_type": "type", "validated": true, "ani": 84.0003, "matched_fragments": 1486, "total_fragments": 2710, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus lignilyticus", "strain": "strain=DLE-14", "accession": "GCA_017942085.1", "taxid": 1172615, "species_taxid": 1172615, "relation_to_type": "type", "validated": true, "ani": 77.1103, "matched_fragments": 133, "total_fragments": 2710, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus farraposensis", "strain": "strain=UY79", "accession": "GCA_020736845.1", "taxid": 2807095, "species_taxid": 2807095, "relation_to_type": "type", "validated": true, "ani": 76.7834, "matched_fragments": 55, "total_fragments": 2710, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, 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"s__Paenibacillus_E planticolens", "ani": 83.9939, "matched_fragments": 1487, "total_fragments": 2710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__NBRC-103111;g__Paenibacillus_E", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.187, "cell_length": 0.433, "doubling_h": 0.565, "growth_tmp": 30.106, "optimum_tmp": 31.323, "optimum_ph": 7.238, "genome_size": 6197949.921, "gc_content": 50.283, "coding_genes": 5381.029, "rRNA16S_genes": 10.237, "tRNA_genes": 93.313, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.918, "range_salinity": 0.0, "facultative_respiration": 0.347, "anaerobic_respiration": 0.007, "aerobic_respiration": 0.645, "mesophilic_range_tmp": 0.9, "thermophilic_range_tmp": 0.033, "psychrophilic_range_tmp": 0.066, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Paenibacillus", "silvestris" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }