{ "type": "genome", "identifier": "GCF_000306115.2", "organism": "Leptospira wolffii serovar Khorat str. Khorat-H2", "title": "Leptospira wolffii serovar Khorat str. Khorat-H2", "description": "na", "data type": "Genome sequencing and assembly", "organization": "J. Craig Venter Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000306115.2", "bioproject": "PRJNA224116", "biosample": "SAMN02436578", "wgs_master": "AKWX00000000.2", "refseq_category": "na", "taxid": "1193069", "species_taxid": "409998", "organism_name": "Leptospira wolffii serovar Khorat str. Khorat-H2", "infraspecific_name": "strain=Khorat-H2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/06/21", "asm_name": "gls454061v02", "asm_submitter": "J. Craig Venter Institute", "gbrs_paired_asm": "GCA_000306115.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/306/115/GCF_000306115.2_gls454061v02", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4400835", "genome_size_ungapped": "4400835", "gc_percent": "45.500000", "replicon_count": "0", "scaffold_count": "23", "contig_count": "23", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-15", "total_gene_count": "4057", "protein_coding_gene_count": "3968", "non_coding_gene_count": "46", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-06-21", "dateModified": "2013-06-21", "datePublished": "2013-06-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Leptospira wolffii serovar Khorat str. Khorat-H2" ], "sample_taxid": [ "1193069" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Thailand: Nakhon Ratchasima" ], "sample_host_location_id": [], "data_size": "1.241 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)": "4400835", "Number of Sequences": "23", "Longest Sequences (bp)": "971387", "N50 (bp)": "916783", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "45.6", "Number of CDSs": "4025", "Average Protein Length": "323.9", "Coding Ratio (%)": "88.9", "Number of rRNAs": "4", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Leptospira wolffii", "strain": "strain=Khorat-H2", "accession": "GCA_000306115.2", "taxid": 409998, "species_taxid": 409998, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1452, "total_fragments": 1455, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Leptospira licerasiae", "strain": "strain=VAR 010", "accession": "GCA_000244755.3", "taxid": 447106, "species_taxid": 447106, "relation_to_type": "type", "validated": true, "ani": 78.9498, "matched_fragments": 541, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira licerasiae", "strain": "strain=ATCC BAA-1110", "accession": "GCA_000526875.1", "taxid": 447106, "species_taxid": 447106, "relation_to_type": "type", "validated": true, "ani": 78.8382, "matched_fragments": 537, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira semungkisensis", "strain": "strain=SSS9", "accession": "GCA_004770055.1", "taxid": 2484985, "species_taxid": 2484985, "relation_to_type": "type", "validated": true, "ani": 78.8039, "matched_fragments": 552, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira langatensis", "strain": "strain=SSW18", "accession": "GCA_004770615.1", "taxid": 2484983, "species_taxid": 2484983, "relation_to_type": "type", "validated": true, "ani": 78.801, "matched_fragments": 559, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira johnsonii", "strain": "strain=E8", "accession": "GCA_003112675.1", "taxid": 1917820, "species_taxid": 1917820, "relation_to_type": "type", "validated": true, "ani": 78.7735, "matched_fragments": 534, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira hartskeerlii", "strain": "strain=MCA2-B-A3", "accession": "GCA_002811475.1", "taxid": 2023177, "species_taxid": 2023177, "relation_to_type": "type", "validated": true, "ani": 78.7332, "matched_fragments": 513, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira venezuelensis", "strain": "strain=CLM-U50", "accession": "GCA_002150035.1", "taxid": 1958811, "species_taxid": 1958811, "relation_to_type": "type", "validated": true, "ani": 78.6696, "matched_fragments": 483, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira saintgironsiae", "strain": "strain=FH4-C-A2", "accession": "GCA_002811765.1", "taxid": 2023183, "species_taxid": 2023183, "relation_to_type": "type", "validated": true, "ani": 78.6315, "matched_fragments": 474, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira neocaledonica", "strain": "strain=ES4-C-A1", "accession": "GCA_002812205.1", "taxid": 2023192, "species_taxid": 2023192, "relation_to_type": "type", "validated": true, "ani": 78.6274, "matched_fragments": 536, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira inadai", "strain": "strain=10", "accession": "GCA_000243675.3", "taxid": 29506, "species_taxid": 29506, "relation_to_type": "type", "validated": true, "ani": 77.7615, "matched_fragments": 261, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira broomii", "strain": "strain=5399", "accession": "GCA_000243715.3", "taxid": 301541, "species_taxid": 301541, "relation_to_type": "type", "validated": true, "ani": 77.6231, "matched_fragments": 249, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira fletcheri", "strain": "strain=SSW15", "accession": "GCA_004769195.1", "taxid": 2484981, "species_taxid": 2484981, "relation_to_type": "type", "validated": true, "ani": 77.4, "matched_fragments": 322, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira kirschneri", "strain": "strain=3522 CT", "accession": "GCA_000243695.3", "taxid": 29507, "species_taxid": 29507, "relation_to_type": "type", "validated": true, "ani": 76.8897, "matched_fragments": 87, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leptospira tipperaryensis", "strain": "strain=GWTS #1", "accession": "GCA_001729245.1", "taxid": 2564040, "species_taxid": 2564040, "relation_to_type": "type", "validated": true, "ani": 76.5645, "matched_fragments": 141, "total_fragments": 1455, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000306115.2", "gtdb_species": "s__Leptospira_B wolffii", "ani": 100.0, "matched_fragments": 1452, "total_fragments": 1455, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Leptospirae;o__Leptospirales;f__Leptospiraceae;g__Leptospira_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.66", "min_intra_species_ani": "96.35", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCF_000347035.1", "gtdb_species": "s__Leptospira_B sp000347035", "ani": 78.9487, "matched_fragments": 535, "total_fragments": 1455, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Leptospirae;o__Leptospirales;f__Leptospiraceae;g__Leptospira_B", "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_000244755.1", "gtdb_species": "s__Leptospira_B licerasiae", "ani": 78.9202, "matched_fragments": 543, "total_fragments": 1455, "gtdb_taxonomy": 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