{ "type": "genome", "identifier": "GCF_000265365.1", "organism": "Alistipes finegoldii DSM 17242", "title": "Alistipes finegoldii DSM 17242", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000265365.1", "bioproject": "PRJNA224116", "biosample": "SAMN02232007", "wgs_master": "na", "refseq_category": "na", "taxid": "679935", "species_taxid": "214856", "organism_name": "Alistipes finegoldii DSM 17242", "infraspecific_name": "strain=DSM 17242", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/06/08", "asm_name": "ASM26536v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000265365.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/265/365/GCF_000265365.1_ASM26536v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3734239", "genome_size_ungapped": "3734239", "gc_percent": "56.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000265365.1-RS_2024_04_01", "annotation_date": "2024-04-01", "total_gene_count": "3237", "protein_coding_gene_count": "3123", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-06-08", "dateModified": "2012-06-08", "datePublished": "2012-06-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Alistipes finegoldii DSM 17242" ], "sample_taxid": [ "679935" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "None" ], "sample_host_disease_id": [], "sample_host_location": [ "Missing" ], "sample_host_location_id": [], "data_size": "1.050 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)": "3734239", "Number of Sequences": "1", "Longest Sequences (bp)": "3734239", "N50 (bp)": "3734239", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.6", "Number of CDSs": "3192", "Average Protein Length": "342.4", "Coding Ratio (%)": "87.8", "Number of rRNAs": "6", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alistipes finegoldii", "strain": "strain=DSM 17242", "accession": "GCA_000265365.1", "taxid": 214856, "species_taxid": 214856, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes onderdonkii subsp. vulgaris", "strain": "strain=3BBH6", "accession": "GCA_006542645.1", "taxid": 2585117, "species_taxid": 328813, "relation_to_type": "type", "validated": true, "ani": 85.6878, "matched_fragments": 744, "total_fragments": 1244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes shahii", "strain": "strain=WAL 8301", "accession": "GCA_000210575.1", "taxid": 328814, "species_taxid": 328814, "relation_to_type": "suspected-type", "validated": true, "ani": 85.5647, "matched_fragments": 695, "total_fragments": 1244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes senegalensis", "strain": "strain=JC50", "accession": "GCA_025145645.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 84.6615, "matched_fragments": 636, "total_fragments": 1244, "ani_threshold": 95, "status": 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"strain": "strain=AP11", "accession": "GCA_025144665.1", "taxid": 1470347, "species_taxid": 1470347, "relation_to_type": "type", "validated": true, "ani": 77.5547, "matched_fragments": 145, "total_fragments": 1244, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000265365.1", "gtdb_species": "s__Alistipes finegoldii", "ani": 100.0, "matched_fragments": 1244, "total_fragments": 1244, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.79", "num_clustered_genomes": 15, "status": "conclusive" }, { "accession": "GCF_000374505.1", "gtdb_species": "s__Alistipes onderdonkii", "ani": 85.9891, "matched_fragments": 753, "total_fragments": 1244, 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