{ "type": "genome", "identifier": "GCF_900114845.1", "organism": "Pimelobacter simplex", "title": "Pimelobacter simplex", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900114845.1", "bioproject": "PRJNA224116", "biosample": "SAMN05421671", "wgs_master": "FOUK00000000.1", "refseq_category": "na", "taxid": "2045", "species_taxid": "2045", "organism_name": "Pimelobacter simplex", "infraspecific_name": "strain=ATCC 6946", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/02", "asm_name": "IMG-taxon 2687453782 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900114845.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/114/845/GCF_900114845.1_IMG-taxon_2687453782_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5631835", "genome_size_ungapped": "5630549", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "12", "contig_count": "12", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900114845.1-RS_2024_04_27", "annotation_date": "2024-04-27", "total_gene_count": "5613", "protein_coding_gene_count": "5537", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-02", "dateModified": "2016-11-02", "datePublished": "2016-11-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Pimelobacter simplex" ], "sample_taxid": [ "2045" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.471 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)": "5631835", "Number of Sequences": "12", "Longest Sequences (bp)": "1555435", "N50 (bp)": "841085", "Gap Ratio (%)": "0.022834", "GCcontent (%)": "72.9", "Number of CDSs": "5576", "Average Protein Length": "317.6", "Coding Ratio (%)": "94.3", "Number of rRNAs": "2", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pimelobacter simplex", "strain": "strain=ATCC 6946", "accession": "GCA_900114845.1", "taxid": 2045, "species_taxid": 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides albidus", "strain": "strain=CCTCC AB 2015297", "accession": "GCA_006335005.1", "taxid": 1517589, "species_taxid": 1517589, "relation_to_type": "type", "validated": true, "ani": 84.9994, "matched_fragments": 1041, "total_fragments": 1871, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides aromaticivorans", "strain": "strain=DSM 15131", "accession": "GCA_013408525.1", "taxid": 200618, "species_taxid": 200618, "relation_to_type": "type", "validated": true, "ani": 84.9364, "matched_fragments": 1158, "total_fragments": 1871, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides humilatus", "strain": "strain=BN130099", "accession": "GCA_008373755.1", "taxid": 2607660, "species_taxid": 2607660, "relation_to_type": "type", "validated": true, "ani": 81.4446, "matched_fragments": 862, "total_fragments": 1871, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides sambongensis", "strain": "strain=KUDC 5002", "accession": "GCA_006494815.1", "taxid": 2589074, "species_taxid": 2589074, "relation_to_type": "type", "validated": true, "ani": 81.2554, "matched_fragments": 837, "total_fragments": 1871, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lacusdianchii", "strain": "strain=JXJ CY 38", "accession": "GCA_020102855.1", "taxid": 2783664, "species_taxid": 2783664, "relation_to_type": "type", "validated": true, "ani": 80.024, "matched_fragments": 710, "total_fragments": 1871, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides donggukensis", "strain": "strain=MJB4", "accession": "GCA_014842875.1", "taxid": 2774019, "species_taxid": 2774019, "relation_to_type": "type", "validated": true, "ani": 79.648, "matched_fragments": 631, "total_fragments": 1871, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_016907515.1", "gtdb_species": "s__Nocardioides nitrophenolicus", "ani": 85.993, "matched_fragments": 1341, "total_fragments": 1871, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_016803235.1", "gtdb_species": "s__Nocardioides simplex_A", "ani": 85.8891, "matched_fragments": 1221, "total_fragments": 1871, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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": 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_006494775.1", "gtdb_species": "s__Nocardioides humi", "ani": 85.6911, "matched_fragments": 1240, "total_fragments": 1871, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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": "GCA_019192965.1", "gtdb_species": "s__Nocardioides daeguensis", "ani": 85.6038, "matched_fragments": 1126, "total_fragments": 1871, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_006335005.1", "gtdb_species": "s__Nocardioides albidus", "ani": 84.9386, "matched_fragments": 1047, "total_fragments": 1871, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_001428825.1", "gtdb_species": "s__Nocardioides sp001428825", "ani": 84.6828, "matched_fragments": 1157, "total_fragments": 1871, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { 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