{ "type": "genome", "identifier": "GCF_014203015.1", "organism": "Castellaniella defragrans", "title": "Castellaniella defragrans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014203015.1", "bioproject": "PRJNA224116", "biosample": "SAMN14908452", "wgs_master": "JACHIB000000000.1", "refseq_category": "na", "taxid": "75697", "species_taxid": "75697", "organism_name": "Castellaniella defragrans", "infraspecific_name": "strain=DSM 12141", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1420301v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014203015.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/203/015/GCF_014203015.1_ASM1420301v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3942929", "genome_size_ungapped": "3942545", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014203015.1-RS_2024_12_23", "annotation_date": "2024-12-23", "total_gene_count": "3632", "protein_coding_gene_count": "3523", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Castellaniella defragrans" ], "sample_taxid": [ "75697" ], "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": "1.066 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)": "3942929", "Number of Sequences": "45", "Longest Sequences (bp)": "284890", "N50 (bp)": "165950", "Gap Ratio (%)": "0.009739", "GCcontent (%)": "69.2", "Number of CDSs": "3575", "Average Protein Length": "333.9", "Coding Ratio (%)": "90.8", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Castellaniella defragrans", "strain": "strain=DSM 12141", "accession": "GCA_014203015.1", "taxid": 75697, "species_taxid": 75697, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1288, "total_fragments": 1292, 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"strain=NCTC10807", "accession": "GCA_001457475.1", "taxid": 85698, "species_taxid": 85698, "relation_to_type": "type", "validated": true, "ani": 79.6492, "matched_fragments": 665, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Achromobacter pulmonis", "strain": "strain=LMG 26696", "accession": "GCA_902859765.1", "taxid": 1389932, "species_taxid": 1389932, "relation_to_type": "type", "validated": true, "ani": 79.6465, "matched_fragments": 584, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Achromobacter xylosoxidans", "strain": "strain=PartM-Axylosoxidans-RM8376", "accession": "GCA_022870085.1", "taxid": 85698, "species_taxid": 85698, "relation_to_type": "type", "validated": true, "ani": 79.6411, "matched_fragments": 655, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bordetella pertussis", "strain": "strain=FDAARGOS_1543", "accession": 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518, "relation_to_type": "suspected-type", "validated": true, "ani": 79.3539, "matched_fragments": 564, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Achromobacter veterisilvae", "strain": "strain=LMG 30378", "accession": "GCA_900496975.1", "taxid": 2069367, "species_taxid": 2069367, "relation_to_type": "type", "validated": true, "ani": 79.3522, "matched_fragments": 613, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bordetella bronchiseptica", "strain": "strain=NBRC 13691", "accession": "GCA_001598655.1", "taxid": 518, "species_taxid": 518, "relation_to_type": "suspected-type", "validated": true, "ani": 79.2903, "matched_fragments": 542, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Achromobacter deleyi", "strain": "strain=LMG 3458", "accession": "GCA_902859705.1", "taxid": 1353891, "species_taxid": 1353891, "relation_to_type": "type", 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