{ "type": "genome", "identifier": "GCF_018223745.1", "organism": "Clostridium beijerinckii", "title": "Clostridium beijerinckii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Brno University of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018223745.1", "bioproject": "PRJNA224116", "biosample": "SAMN18839070", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1520", "species_taxid": "1520", "organism_name": "Clostridium beijerinckii", "infraspecific_name": "strain=DSM 791", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/02", "asm_name": "ASM1822374v1", "asm_submitter": "Brno University of Technology", "gbrs_paired_asm": "GCA_018223745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/223/745/GCF_018223745.1_ASM1822374v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5950247", "genome_size_ungapped": "5950247", "gc_percent": "30.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018223745.1-RS_2024_03_17", "annotation_date": "2024-03-17", "total_gene_count": "5334", "protein_coding_gene_count": "5109", "non_coding_gene_count": "148", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-02", "dateModified": "2021-05-02", "datePublished": "2021-05-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium beijerinckii" ], "sample_taxid": [ "1520" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Czech Republic" ], "sample_host_location_id": [], "data_size": "1.620 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)": "5950247", "Number of Sequences": "2", "Longest Sequences (bp)": "5876902", "N50 (bp)": "5876902", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "29.9", "Number of CDSs": "5285", "Average Protein Length": "300.3", "Coding Ratio (%)": "80.0", "Number of rRNAs": "49", "Number of tRNAs": "94", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium beijerinckii", "strain": "strain=DSM 791", "accession": "GCA_018223745.1", "taxid": 1520, "species_taxid": 1520, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1982, "total_fragments": 1982, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Clostridium beijerinckii", "strain": "strain=NCTC13035", "accession": "GCA_900447025.1", "taxid": 1520, "species_taxid": 1520, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9874, "matched_fragments": 1969, "total_fragments": 1982, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Clostridium beijerinckii", "strain": "strain=DSM 791", "accession": "GCA_002006445.1", "taxid": 1520, "species_taxid": 1520, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9028, "matched_fragments": 1779, "total_fragments": 1982, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Clostridium diolis", "strain": "strain=DSM 15410", "accession": "GCA_008705175.1", "taxid": 223919, "species_taxid": 223919, "relation_to_type": "suspected-type", "validated": true, "ani": 98.1907, "matched_fragments": 1736, "total_fragments": 1982, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Clostridium diolis", "strain": "strain=DSM 15410", "accession": "GCA_008580445.1", "taxid": 223919, "species_taxid": 223919, "relation_to_type": "suspected-type", "validated": true, "ani": 98.139, "matched_fragments": 1690, "total_fragments": 1982, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Clostridium gelidum", "strain": "strain=C5S11", "accession": "GCA_019977655.1", "taxid": 704125, "species_taxid": 704125, "relation_to_type": "type", "validated": true, "ani": 81.4702, "matched_fragments": 919, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium butyricum", "strain": "strain=NBRC 13949", "accession": "GCA_006742065.1", "taxid": 1492, "species_taxid": 1492, "relation_to_type": "type", "validated": true, "ani": 79.4477, "matched_fragments": 494, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium butyricum", "strain": "strain=DSM 10702", "accession": "GCA_014131795.1", "taxid": 1492, "species_taxid": 1492, "relation_to_type": "type", "validated": true, "ani": 79.4219, "matched_fragments": 503, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium butyricum", "strain": "strain=NBRC 13949", "accession": "GCA_007992895.1", "taxid": 1492, "species_taxid": 1492, "relation_to_type": "type", "validated": true, "ani": 78.7447, "matched_fragments": 474, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium butyricum", "strain": "strain=DSM 10702", "accession": "GCA_000409755.1", "taxid": 1492, "species_taxid": 1492, "relation_to_type": "type", "validated": true, "ani": 78.7253, "matched_fragments": 477, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium cagae", "strain": "strain=Marseille-P4344", "accession": "GCA_900290265.1", "taxid": 2080751, "species_taxid": 2080751, "relation_to_type": "type", "validated": true, "ani": 78.6553, "matched_fragments": 405, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium weizhouense", "strain": "strain=YB-6", "accession": "GCA_019431045.1", "taxid": 2859781, "species_taxid": 2859781, "relation_to_type": "type", "validated": true, "ani": 78.533, "matched_fragments": 463, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halarcobacter ebronensis", "strain": "strain=LMG 27922", "accession": "GCA_013201825.1", "taxid": 1462615, "species_taxid": 1462615, "relation_to_type": "type", "validated": true, "ani": 75.5001, "matched_fragments": 52, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018223745.1", "gtdb_species": "s__Clostridium beijerinckii", "ani": 100.0, "matched_fragments": 1982, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.01", "min_intra_species_ani": "95.18", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.79", "num_clustered_genomes": 244, "status": "conclusive" }, { "accession": "GCF_000621745.1", "gtdb_species": "s__Clostridium beijerinckii_A", "ani": 92.2251, "matched_fragments": 1555, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "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_002029255.1", "gtdb_species": "s__Clostridium chromiireducens", "ani": 82.7081, "matched_fragments": 999, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.07", "min_intra_species_ani": "97.40", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000230835.1", "gtdb_species": "s__Clostridium sp000230835", "ani": 82.1199, "matched_fragments": 1018, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.12", "min_intra_species_ani": "96.12", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003129525.1", "gtdb_species": "s__Clostridium beijerinckii_D", "ani": 81.8687, "matched_fragments": 867, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "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_002760435.1", "gtdb_species": "s__Clostridium sp002760435", "ani": 81.6081, "matched_fragments": 952, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000340885.1", "gtdb_species": "s__Clostridium saccharoperbutylacetonicum", "ani": 81.0309, "matched_fragments": 897, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000473995.1", "gtdb_species": "s__Clostridium saccharobutylicum", "ani": 80.9452, "matched_fragments": 768, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "95.82", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.83", "num_clustered_genomes": 65, "status": "-" }, { "accession": "GCF_002006345.1", "gtdb_species": "s__Clostridium puniceum", "ani": 80.8903, "matched_fragments": 862, 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"d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.58", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.80", "num_clustered_genomes": 64, "status": "-" }, { "accession": "GCF_001735765.2", "gtdb_species": "s__Clostridium taeniosporum", "ani": 78.7775, "matched_fragments": 403, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "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_900290265.1", "gtdb_species": "s__Clostridium cagae", "ani": 78.6906, "matched_fragments": 401, "total_fragments": 1982, "gtdb_taxonomy": 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0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Clostridium", "beijerinckii" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }