{ "type": "genome", "identifier": "GCF_900447045.1", "organism": "Clostridium paraputrificum", "title": "Clostridium paraputrificum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900447045.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4530643", "wgs_master": "UAWH00000000.1", "refseq_category": "na", "taxid": "29363", "species_taxid": "29363", "organism_name": "Clostridium paraputrificum", "infraspecific_name": "strain=NCTC11833", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/29", "asm_name": "52087_F01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900447045.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/447/045/GCF_900447045.1_52087_F01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3627436", "genome_size_ungapped": "3627436", "gc_percent": "30.000000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900447045.1-RS_2024_04_12", "annotation_date": "2024-04-12", "total_gene_count": "3553", "protein_coding_gene_count": "3394", "non_coding_gene_count": "117", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-29", "dateModified": "2018-06-29", "datePublished": "2018-06-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium paraputrificum" ], "sample_taxid": [ "29363" ], "sample_host_organism": [ "not available" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.985 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)": "3627436", "Number of Sequences": "20", "Longest Sequences (bp)": "1376545", "N50 (bp)": "975231", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "30.0", "Number of CDSs": "3440", "Average Protein Length": "306.5", "Coding Ratio (%)": "87.2", "Number of rRNAs": "26", "Number of tRNAs": "81", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium paraputrificum", "strain": "strain=NCTC11833", "accession": "GCA_900447045.1", "taxid": 29363, "species_taxid": 29363, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1201, "total_fragments": 1202, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Clostridium chauvoei", "strain": "strain=DSM 7528", "accession": "GCA_002327185.1", "taxid": 46867, "species_taxid": 46867, "relation_to_type": "type", "validated": true, "ani": 78.5211, "matched_fragments": 261, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium cibarium", "strain": "strain=Sa3CVN1", "accession": "GCA_014836335.1", "taxid": 2762247, "species_taxid": 2762247, "relation_to_type": "type", "validated": true, "ani": 78.4942, "matched_fragments": 300, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium septicum", "strain": "strain=FDAARGOS_1551", "accession": "GCA_020736665.1", "taxid": 1504, "species_taxid": 1504, "relation_to_type": "type", "validated": true, "ani": 78.4785, "matched_fragments": 259, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium isatidis", "strain": "strain=DSM 15098", "accession": "GCA_002285495.1", "taxid": 182773, "species_taxid": 182773, "relation_to_type": "type", "validated": true, "ani": 78.3428, "matched_fragments": 202, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium perfringens", "strain": "strain=ATCC 13124", "accession": "GCA_000013285.1", "taxid": 1502, "species_taxid": 1502, "relation_to_type": "type", "validated": true, "ani": 78.3227, "matched_fragments": 205, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium neonatale", "strain": "strain=LCDC 99A005", "accession": "GCA_002553615.1", "taxid": 137838, "species_taxid": 137838, "relation_to_type": "type", "validated": true, "ani": 78.262, "matched_fragments": 269, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium saccharoperbutylacetonicum", "strain": "strain=N1-4(HMT)", "accession": "GCA_000340885.1", "taxid": 36745, "species_taxid": 36745, "relation_to_type": "type", "validated": true, "ani": 78.2176, "matched_fragments": 236, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium tertium", "strain": "strain=DSM 2485", "accession": "GCA_017873245.1", "taxid": 1559, "species_taxid": 1559, "relation_to_type": "type", "validated": true, "ani": 77.9155, "matched_fragments": 311, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium saudiense", "strain": "strain=JCC", "accession": "GCA_000577815.1", "taxid": 1414720, "species_taxid": 1414720, "relation_to_type": "type", "validated": true, "ani": 77.8619, "matched_fragments": 258, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium thermobutyricum", "strain": "strain=DSM 4928", "accession": "GCA_002050515.1", "taxid": 29372, "species_taxid": 29372, "relation_to_type": "type", "validated": true, "ani": 77.8318, "matched_fragments": 266, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium celatum", "strain": "strain=DSM 1785", "accession": "GCA_000320405.1", "taxid": 36834, "species_taxid": 36834, "relation_to_type": "type", "validated": true, "ani": 77.8112, "matched_fragments": 256, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium uliginosum", "strain": "strain=DSM 12992", "accession": "GCA_900112485.1", "taxid": 119641, "species_taxid": 119641, "relation_to_type": "type", "validated": true, "ani": 77.7818, "matched_fragments": 240, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium gallinarum", "strain": "strain=Sa3CUN1", "accession": "GCA_014836325.1", "taxid": 2762246, "species_taxid": 2762246, "relation_to_type": "type", "validated": true, "ani": 77.7374, "matched_fragments": 272, "total_fragments": 1202, "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": 77.7249, "matched_fragments": 251, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium vincentii", "strain": "strain=DSM 10228", "accession": "GCA_002995745.1", "taxid": 52704, "species_taxid": 52704, "relation_to_type": "type", "validated": true, "ani": 77.6339, "matched_fragments": 257, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium autoethanogenum", "strain": "strain=DSM 10061", "accession": "GCA_000484505.2", "taxid": 84023, "species_taxid": 84023, "relation_to_type": "suspected-type", "validated": true, "ani": 77.4515, "matched_fragments": 76, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium saccharoperbutylacetonicum", "strain": "strain=ATCC 27021", "accession": "GCA_000334435.1", "taxid": 36745, "species_taxid": 36745, "relation_to_type": "type", "validated": true, "ani": 77.3807, "matched_fragments": 228, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium chrysemydis", "strain": "strain=PT", "accession": "GCA_015234215.1", "taxid": 2665504, "species_taxid": 2665504, "relation_to_type": "type", "validated": true, "ani": 77.2768, "matched_fragments": 224, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium puniceum", "strain": "strain=DSM 2619", "accession": "GCA_002006345.1", "taxid": 29367, "species_taxid": 29367, "relation_to_type": "type", "validated": true, "ani": 77.2355, "matched_fragments": 254, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium zeae", "strain": "strain=CSC2", "accession": "GCA_017312485.1", "taxid": 2759022, "species_taxid": 2759022, "relation_to_type": "type", "validated": true, "ani": 77.1205, "matched_fragments": 166, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium tarantellae", "strain": "strain=DSM 3997", "accession": "GCA_009295725.1", "taxid": 39493, "species_taxid": 39493, "relation_to_type": "type", "validated": true, "ani": 77.1101, "matched_fragments": 187, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium intestinale", "strain": "strain=DSM 6191", "accession": "GCA_900130055.1", "taxid": 36845, "species_taxid": 36845, "relation_to_type": "type", "validated": true, "ani": 77.0652, "matched_fragments": 183, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium massiliodielmoense", "strain": "strain=MT26", "accession": "GCA_900176615.1", "taxid": 1776385, "species_taxid": 1776385, "relation_to_type": "type", "validated": true, "ani": 76.708, "matched_fragments": 112, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium simiarum", "strain": "strain=MSJ-4", "accession": "GCA_018919175.1", "taxid": 2841506, "species_taxid": 2841506, "relation_to_type": "type", "validated": true, "ani": 76.5815, "matched_fragments": 115, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium thailandense", "strain": "strain=PL3", "accession": "GCA_019207025.1", "taxid": 2794346, "species_taxid": 2794346, "relation_to_type": "type", "validated": true, "ani": 75.8051, "matched_fragments": 114, "total_fragments": 1202, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900447045.1", "gtdb_species": "s__Clostridium paraputrificum", "ani": 100.0, "matched_fragments": 1201, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "95.42", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 29, "status": "conclusive" }, { "accession": "GCA_018372875.1", "gtdb_species": "s__Clostridium sp018372875", "ani": 94.473, "matched_fragments": 915, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.91", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002327185.1", "gtdb_species": "s__Clostridium chauvoei", "ani": 78.5462, "matched_fragments": 262, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.88", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_015058405.1", "gtdb_species": "s__Clostridium sp015058405", "ani": 78.5382, "matched_fragments": 311, "total_fragments": 1202, "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_003606265.1", "gtdb_species": "s__Clostridium septicum", "ani": 78.445, "matched_fragments": 272, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "99.48", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900116755.1", "gtdb_species": "s__Clostridium sp900116755", "ani": 78.4411, "matched_fragments": 285, "total_fragments": 1202, "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_004353185.1", "gtdb_species": "s__Clostridium cuniculi", "ani": 78.4301, "matched_fragments": 291, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.75", "min_intra_species_ani": "97.60", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.82", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900539375.1", "gtdb_species": "s__Clostridium sp900539375", "ani": 78.4185, "matched_fragments": 293, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_007115085.1", "gtdb_species": "s__Clostridium sp007115085", "ani": 78.3419, "matched_fragments": 309, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "99.42", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900547475.1", "gtdb_species": "s__Clostridium sp900547475", "ani": 78.3258, "matched_fragments": 264, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.47", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.84", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001405015.1", "gtdb_species": "s__Clostridium disporicum", "ani": 78.1835, "matched_fragments": 235, "total_fragments": 1202, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.24", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_015058375.1", "gtdb_species": "s__Clostridium sp015058375", "ani": 78.0828, "matched_fragments": 230, "total_fragments": 1202, "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": "GCA_003129525.1", "gtdb_species": "s__Clostridium beijerinckii_D", "ani": 78.0434, "matched_fragments": 252, "total_fragments": 1202, "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": "GCA_902785295.1", "gtdb_species": "s__Clostridium sp902785295", "ani": 78.0093, "matched_fragments": 251, "total_fragments": 1202, "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_015555905.1", "gtdb_species": "s__Clostridium sp015555905", "ani": 77.9976, "matched_fragments": 264, "total_fragments": 1202, "gtdb_taxonomy": 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