{ "type": "genome", "identifier": "GCF_900169525.1", "organism": "Corynebacterium pacaense", "title": "Corynebacterium pacaense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900169525.1", "bioproject": "PRJNA224116", "biosample": "SAMEA103910525", "wgs_master": "FWCI00000000.1", "refseq_category": "reference genome", "taxid": "1816684", "species_taxid": "1816684", "organism_name": "Corynebacterium pacaense", "infraspecific_name": "strain=Marseille-P2417", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/03/24", "asm_name": "PRJEB19973", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900169525.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/169/525/GCF_900169525.1_PRJEB19973", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3030206", "genome_size_ungapped": "3028763", "gc_percent": "63.500000", "replicon_count": "0", "scaffold_count": "13", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900169525.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "2802", "protein_coding_gene_count": "2662", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-03-24", "dateModified": "2017-03-24", "datePublished": "2017-03-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Corynebacterium pacaense" ], "sample_taxid": [ "1816684" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.842 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3030206", "Number of Sequences": "13", "Longest Sequences (bp)": "1512061", "N50 (bp)": "1475107", "Gap Ratio (%)": "0.047654", "GCcontent (%)": "63.7", "Number of CDSs": "2787", "Average Protein Length": "321.6", "Coding Ratio (%)": "88.7", "Number of rRNAs": "12", "Number of tRNAs": "54", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium pacaense", "strain": "strain=Marseille-P2417", "accession": "GCA_900169525.1", "taxid": 1816684, "species_taxid": 1816684, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1001, "total_fragments": 1004, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corynebacterium efficiens", "strain": "strain=YS-314", "accession": "GCA_000011305.1", "taxid": 152794, "species_taxid": 152794, "relation_to_type": "type", "validated": true, "ani": 79.9003, "matched_fragments": 485, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium efficiens", "strain": "strain=YS-314", "accession": "GCA_000160795.1", "taxid": 152794, "species_taxid": 152794, "relation_to_type": "type", "validated": true, "ani": 79.8115, "matched_fragments": 468, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium gallinarum", "strain": "strain=Sa1YVA5", "accession": "GCA_014837045.1", "taxid": 2762214, "species_taxid": 2762214, "relation_to_type": "type", "validated": true, "ani": 79.7379, "matched_fragments": 471, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { 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"accession": "GCA_014645275.1", "taxid": 349751, "species_taxid": 349751, "relation_to_type": "type", "validated": true, "ani": 78.3861, "matched_fragments": 312, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora olivasterospora", "strain": "strain=DSM 43868", "accession": "GCA_007830265.1", "taxid": 1880, "species_taxid": 1880, "relation_to_type": "type", "validated": true, "ani": 76.5098, "matched_fragments": 75, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900169525.1", "gtdb_species": "s__Corynebacterium pacaense", "ani": 100.0, "matched_fragments": 1002, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, 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"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_002355155.1", "gtdb_species": "s__Corynebacterium suranareeae", "ani": 78.9723, "matched_fragments": 186, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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_000341345.1", "gtdb_species": "s__Corynebacterium halotolerans", "ani": 78.9714, "matched_fragments": 337, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": 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