{ "type": "genome", "identifier": "GCA_900762425.1", "organism": "Clostridia bacterium", "title": "Clostridia bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "DOE JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCA_900762425.1", "bioproject": "PRJEB31003", "biosample": "SAMEA5278410", "wgs_master": "CAAFGQ000000000.1", "refseq_category": "na", "taxid": "2044939", "species_taxid": "2044939", "organism_name": "Clostridia bacterium", "infraspecific_name": "", "isolate": "HGM13654", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/25", "asm_name": "SRS143598_2", "submitter": "DOE JGI", "gbrs_paired_asm": "GCF_900762425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/900/762/425/GCA_900762425.1_SRS143598_2", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-25", "dateModified": "2020-06-25", "datePublished": "2020-06-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridia bacterium" ], "sample_taxid": [ "2044939" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "0.404 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": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1504455", "Number of Sequences": "40", "Longest Sequences (bp)": "306939", "N50 (bp)": "99820", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "26.4", "Number of CDSs": "1421", "Average Protein Length": "300.5", "Coding Ratio (%)": "85.1", "Number of rRNAs": "2", "Number of tRNAs": "34", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Senegalia massiliensis", "strain": "strain=SIT17", "accession": "GCA_900626135.1", "taxid": 1720316, "species_taxid": 1720316, "relation_to_type": "type", "validated": true, "ani": 75.19, "matched_fragments": 53, "total_fragments": 481, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium tepidum", "strain": "strain=IEH 97212", "accession": "GCA_002008345.1", "taxid": 1962263, "species_taxid": 1962263, "relation_to_type": "type", "validated": true, "ani": 75.0026, "matched_fragments": 52, "total_fragments": 481, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium acetireducens", "strain": "strain=DSM 10703", "accession": "GCA_001758365.1", "taxid": 76489, "species_taxid": 76489, "relation_to_type": "type", "validated": true, "ani": 74.8407, "matched_fragments": 62, "total_fragments": 481, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900762425.1", "gtdb_species": "s__CAG-269 sp900762425", "ani": 100.0, "matched_fragments": 478, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "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": "conclusive" }, { "accession": "GCA_905213875.1", "gtdb_species": "s__CAG-269 sp905213875", "ani": 82.9096, "matched_fragments": 314, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "98.07", "mean_intra_species_af": "0.72", "min_intra_species_af": "0.64", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_014846485.1", "gtdb_species": "s__CAG-269 sp014846485", "ani": 82.7213, "matched_fragments": 272, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "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_900554365.1", "gtdb_species": "s__CAG-269 sp900554365", "ani": 81.724, "matched_fragments": 265, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_000431335.1", "gtdb_species": "s__CAG-269 sp000431335", "ani": 80.4415, "matched_fragments": 236, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.17", "min_intra_species_ani": "98.64", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_900556695.1", "gtdb_species": "s__CAG-269 sp900556695", "ani": 80.337, "matched_fragments": 162, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "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_900553985.1", "gtdb_species": "s__CAG-269 sp900553985", "ani": 80.0619, "matched_fragments": 250, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.48", "min_intra_species_ani": "98.04", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_001916005.1", "gtdb_species": "s__CAG-269 sp001916005", "ani": 78.9815, "matched_fragments": 234, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.70", "min_intra_species_ani": "96.22", "mean_intra_species_af": "0.72", "min_intra_species_af": "0.66", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_000437215.1", "gtdb_species": "s__CAG-269 sp000437215", "ani": 78.8909, "matched_fragments": 205, "total_fragments": 481, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__TANB77;f__CAG-508;g__CAG-269", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.98", "min_intra_species_ani": "98.94", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__TANB77", "f__CAG-508", "g__CAG-269", "s__CAG-269 sp900762425" ], "_genome_taxon": [ "Clostridia", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__TANB77", "f__CAG-508", "g__CAG-269", "s__CAG-269 sp900762425", "Bacteria", "Bacillota", "A", "Clostridia", "TANB77", "CAG-508", "CAG-269", "CAG-269", "sp900762425" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }