{ "type": "genome", "identifier": "GCF_004363035.1", "organism": "Thiopseudomonas denitrificans", "title": "Thiopseudomonas denitrificans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004363035.1", "bioproject": "PRJNA224116", "biosample": "SAMN09074682", "wgs_master": "SNYK00000000.1", "refseq_category": "reference genome", "taxid": "1501432", "species_taxid": "1501432", "organism_name": "Thiopseudomonas denitrificans", "infraspecific_name": "strain=DSM 28679", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/22", "asm_name": "ASM436303v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_004363035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/363/035/GCF_004363035.1_ASM436303v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2832987", "genome_size_ungapped": "2831568", "gc_percent": "59.000000", "replicon_count": "0", "scaffold_count": "26", "contig_count": "26", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004363035.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2642", "protein_coding_gene_count": "2561", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-22", "dateModified": "2019-03-22", "datePublished": "2019-03-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Thiopseudomonas denitrificans" ], "sample_taxid": [ "1501432" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.794 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)": "2832987", "Number of Sequences": "26", "Longest Sequences (bp)": "430026", "N50 (bp)": "188484", "Gap Ratio (%)": "0.050088", "GCcontent (%)": "59.0", "Number of CDSs": "2599", "Average Protein Length": "323.5", "Coding Ratio (%)": "89.0", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thiopseudomonas denitrificans", "strain": "strain=DSM 28679", "accession": "GCA_004363035.1", "taxid": 1501432, "species_taxid": 1501432, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 78.7607, "matched_fragments": 309, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas delhiensis", "strain": "strain=CCM 7361", "accession": "GCA_900099945.1", "taxid": 366289, "species_taxid": 366289, "relation_to_type": "type", "validated": true, "ani": 78.7199, "matched_fragments": 314, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aromaticivorans", "strain": "strain=MAP12", "accession": "GCA_019097855.1", "taxid": 2849492, "species_taxid": 2849492, "relation_to_type": "type", "validated": true, "ani": 78.7096, "matched_fragments": 311, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas carbonaria", "strain": "strain=CIP 111764", "accession": "GCA_904061905.1", "taxid": 2762745, "species_taxid": 2762745, "relation_to_type": "type", "validated": true, "ani": 78.4296, "matched_fragments": 321, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guguanensis", "strain": "strain=JCM 18416", "accession": "GCA_900104265.1", "taxid": 1198456, "species_taxid": 1198456, "relation_to_type": "type", "validated": true, "ani": 78.4228, "matched_fragments": 320, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas campi", "strain": "strain=S1-A32-2", "accession": "GCA_013200955.2", "taxid": 2731681, "species_taxid": 2731681, "relation_to_type": "type", "validated": true, "ani": 78.3088, "matched_fragments": 306, "total_fragments": 931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", 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