{ "type": "genome", "identifier": "GCF_010915725.1", "organism": "Thiorhodococcus mannitoliphagus", "title": "Thiorhodococcus mannitoliphagus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Bellevue University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_010915725.1", "bioproject": "PRJNA224116", "biosample": "SAMN14084889", "wgs_master": "JAAIJR000000000.1", "refseq_category": "reference genome", "taxid": "329406", "species_taxid": "329406", "organism_name": "Thiorhodococcus mannitoliphagus", "infraspecific_name": "strain=DSM 18266", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/21", "asm_name": "ASM1091572v1", "asm_submitter": "Bellevue University", "gbrs_paired_asm": "GCA_010915725.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/915/725/GCF_010915725.1_ASM1091572v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6310033", "genome_size_ungapped": "6310033", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "525", "contig_count": "525", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_010915725.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "5552", "protein_coding_gene_count": "5338", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-21", "dateModified": "2020-02-21", "datePublished": "2020-02-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Thiorhodococcus mannitoliphagus" ], "sample_taxid": [ "329406" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: White Sea coast" ], "sample_host_location_id": [], "data_size": "1.790 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)": "6310033", "Number of Sequences": "525", "Longest Sequences (bp)": "141546", "N50 (bp)": "38298", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.5", "Number of CDSs": "5326", "Average Protein Length": "315.4", "Coding Ratio (%)": "79.9", "Number of rRNAs": "3", "Number of tRNAs": "54", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thiorhodococcus mannitoliphagus", "strain": "strain=DSM 18266", "accession": "GCA_010915725.1", "taxid": 329406, "species_taxid": 329406, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1871, "total_fragments": 1886, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thiorhodococcus minor", "strain": "strain=DSM 11518", "accession": "GCA_010820565.1", "taxid": 57489, "species_taxid": 57489, "relation_to_type": "type", "validated": true, "ani": 83.5895, "matched_fragments": 1160, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocystis violacea", "strain": "strain=DSM 207", "accession": "GCA_016583575.1", "taxid": 13725, "species_taxid": 13725, "relation_to_type": "type", "validated": true, "ani": 79.359, "matched_fragments": 681, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium vinosum", "strain": "strain=DSM 180", "accession": "GCA_000025485.1", "taxid": 1049, "species_taxid": 1049, "relation_to_type": "type", "validated": true, "ani": 78.994, "matched_fragments": 502, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium tepidum", "strain": "strain=NZ", "accession": "GCA_018409545.1", "taxid": 553982, "species_taxid": 553982, "relation_to_type": "type", "validated": true, "ani": 78.8488, "matched_fragments": 467, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium humboldtianum", "strain": "strain=DSM 21881", "accession": "GCA_013385175.1", "taxid": 504901, "species_taxid": 504901, "relation_to_type": "type", "validated": true, "ani": 78.7476, "matched_fragments": 557, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocapsa bogorovii", "strain": "strain=BBS", "accession": "GCA_021228795.1", "taxid": 521689, "species_taxid": 521689, "relation_to_type": "type", "validated": true, "ani": 78.6266, "matched_fragments": 431, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium gracile", "strain": "strain=DSM 203", "accession": "GCA_004343155.1", "taxid": 1048, "species_taxid": 1048, "relation_to_type": "type", "validated": true, "ani": 78.5896, "matched_fragments": 455, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium gracile", "strain": "strain=DSM 203", "accession": "GCA_016583515.1", "taxid": 1048, "species_taxid": 1048, "relation_to_type": "type", "validated": true, "ani": 78.5486, "matched_fragments": 443, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium purpuratum", "strain": "strain=984", "accession": "GCA_000224005.3", "taxid": 37487, "species_taxid": 37487, "relation_to_type": "type", "validated": true, "ani": 78.4113, "matched_fragments": 436, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocapsa roseopersicina", "strain": "strain=DSM 217", "accession": "GCA_900106925.1", "taxid": 1058, "species_taxid": 1058, "relation_to_type": "type", "validated": true, "ani": 78.2738, "matched_fragments": 440, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocapsa marina", "strain": "strain=5811", "accession": "GCA_000223985.2", "taxid": 244573, "species_taxid": 244573, "relation_to_type": "type", "validated": true, "ani": 78.2215, "matched_fragments": 452, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocapsa rosea", "strain": "strain=DSM 235", "accession": "GCA_003634315.1", "taxid": 69360, "species_taxid": 69360, "relation_to_type": "type", "validated": true, "ani": 78.0507, "matched_fragments": 447, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium warmingii", "strain": "strain=DSM 173", "accession": "GCA_900107145.1", "taxid": 61595, "species_taxid": 61595, "relation_to_type": "type", "validated": 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"total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia oxyphila", "strain": "strain=NBRC 105797", "accession": "GCA_000685075.1", "taxid": 614212, "species_taxid": 614212, "relation_to_type": "type", "validated": true, "ani": 75.4251, "matched_fragments": 102, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas maliensis", "strain": "strain=M97", "accession": "GCA_000401255.1", "taxid": 1321368, "species_taxid": 1321368, "relation_to_type": "type", "validated": true, "ani": 75.291, "matched_fragments": 53, "total_fragments": 1886, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_010915725.1", "gtdb_species": "s__Thiorhodococcus mannitoliphagus", "ani": 100.0, "matched_fragments": 1871, "total_fragments": 1886, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Thiorhodococcus", "mannitoliphagus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }