{ "type": "genome", "identifier": "GCF_004770745.1", "organism": "Leptospira ognonensis", "title": "Leptospira ognonensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "INRS-Institut Armand-Frappier", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004770745.1", "bioproject": "PRJNA224116", "biosample": "SAMN10316409", "wgs_master": "RQGD00000000.1", "refseq_category": "reference genome", "taxid": "2484945", "species_taxid": "2484945", "organism_name": "Leptospira ognonensis", "infraspecific_name": "strain=201702476", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/10", "asm_name": "ASM477074v1", "asm_submitter": "INRS-Institut Armand-Frappier", "gbrs_paired_asm": "GCA_004770745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/770/745/GCF_004770745.1_ASM477074v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3988113", "genome_size_ungapped": "3988072", "gc_percent": "39.500000", "replicon_count": "0", "scaffold_count": "62", "contig_count": "62", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004770745.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "3749", "protein_coding_gene_count": "3679", "non_coding_gene_count": "41", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-10", "dateModified": "2019-04-10", "datePublished": "2019-04-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Leptospira ognonensis" ], "sample_taxid": [ "2484945" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France" ], "sample_host_location_id": [], "data_size": "1.136 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3988113", "Number of Sequences": "62", "Longest Sequences (bp)": "498844", "N50 (bp)": "305521", "Gap Ratio (%)": "0.001028", "GCcontent (%)": "39.7", "Number of CDSs": "3660", "Average Protein Length": "333.0", "Coding Ratio (%)": "91.7", "Number of rRNAs": "4", "Number of tRNAs": "35", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Leptospira ognonensis", "strain": "strain=201702476", "accession": "GCA_004770745.1", "taxid": 2484945, "species_taxid": 2484945, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1299, "total_fragments": 1299, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Leptospira meyeri", "strain": "strain=DSM 21537", "accession": "GCA_004368965.1", "taxid": 29508, "species_taxid": 29508, "relation_to_type": "type", "validated": true, "ani": 77.5195, "matched_fragments": 182, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira ryugenii", "strain": "strain=YH101", "accession": "GCA_003114855.1", "taxid": 1917863, "species_taxid": 1917863, "relation_to_type": "type", "validated": true, "ani": 77.4537, "matched_fragments": 191, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira kobayashii", "strain": "strain=E30", "accession": "GCA_003114835.3", "taxid": 1917830, "species_taxid": 1917830, "relation_to_type": "type", "validated": true, "ani": 77.3632, "matched_fragments": 202, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira ilyithenensis", "strain": "strain=201400974", "accession": "GCA_004771005.1", "taxid": 2484901, "species_taxid": 2484901, "relation_to_type": "type", "validated": true, "ani": 77.2847, "matched_fragments": 194, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira harrisiae", "strain": "strain=FH2-B-A1", "accession": "GCA_002811945.1", "taxid": 2023189, "species_taxid": 2023189, "relation_to_type": "type", "validated": true, "ani": 77.2023, "matched_fragments": 183, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira ellinghausenii", "strain": "strain=E18", "accession": "GCA_003114815.1", "taxid": 1917822, "species_taxid": 1917822, "relation_to_type": "type", "validated": true, "ani": 77.1794, "matched_fragments": 184, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira terpstrae", "strain": "strain=LT 11-33", "accession": "GCA_000332495.2", "taxid": 293075, "species_taxid": 293075, "relation_to_type": "type", "validated": true, "ani": 77.115, "matched_fragments": 207, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira yanagawae", "strain": "strain=Sao Paulo", "accession": "GCA_000332475.2", "taxid": 293069, "species_taxid": 293069, "relation_to_type": "type", "validated": true, "ani": 77.042, "matched_fragments": 187, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira brenneri", "strain": "strain=JW2-C-A2", "accession": "GCA_002812125.1", "taxid": 2023182, "species_taxid": 2023182, "relation_to_type": "type", "validated": true, "ani": 76.9288, "matched_fragments": 187, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira levettii", "strain": "strain=MCA2-B-A1", "accession": "GCA_002812085.1", "taxid": 2023178, "species_taxid": 2023178, "relation_to_type": "type", "validated": true, "ani": 76.9192, "matched_fragments": 200, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004770745.1", "gtdb_species": "s__Leptospira_A ognonensis", "ani": 100.0, "matched_fragments": 1299, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Leptospirae;o__Leptospirales;f__Leptospiraceae;g__Leptospira_A", "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": "GCF_003114835.1", "gtdb_species": "s__Leptospira_A kobayashii", "ani": 77.3756, "matched_fragments": 198, "total_fragments": 1299, "gtdb_taxonomy": 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