{ "type": "genome", "identifier": "GCF_002105555.1", "organism": "Paracoccus contaminans", "title": "Paracoccus contaminans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Robert Koch Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002105555.1", "bioproject": "PRJNA224116", "biosample": "SAMN06289119", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1945662", "species_taxid": "1945662", "organism_name": "Paracoccus contaminans", "infraspecific_name": "strain=RKI 16-01929T=LMG 29738T=CCM 8701T=CIP 111112T", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/24", "asm_name": "ASM210555v1", "asm_submitter": "Robert Koch Institute", "gbrs_paired_asm": "GCA_002105555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/105/555/GCF_002105555.1_ASM210555v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3033494", "genome_size_ungapped": "3033494", "gc_percent": "68.500000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002105555.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2934", "protein_coding_gene_count": "2817", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-24", "dateModified": "2017-04-24", "datePublished": "2017-04-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Paracoccus contaminans" ], "sample_taxid": [ "1945662" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "0.817 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)": "3033494", "Number of Sequences": "2", "Longest Sequences (bp)": "2939512", "N50 (bp)": "2939512", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.7", "Number of CDSs": "2922", "Average Protein Length": "313.4", "Coding Ratio (%)": "90.6", "Number of rRNAs": "6", "Number of tRNAs": "55", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paracoccus contaminans", "strain": "strain=RKI 16-01929T=LMG 29738T=CCM 8701T=CIP 111112T", "accession": "GCA_002105555.1", "taxid": 1945662, "species_taxid": 1945662, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1009, "total_fragments": 1010, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Paracoccus sphaerophysae", "strain": "strain=HAMBI 3106", "accession": "GCA_000763805.1", "taxid": 690417, "species_taxid": 690417, "relation_to_type": "type", "validated": true, "ani": 83.7482, "matched_fragments": 680, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus luteus", "strain": "strain=CFH 10530", "accession": "GCA_004522155.1", "taxid": 2508543, "species_taxid": 2508543, "relation_to_type": "type", "validated": true, "ani": 82.9536, "matched_fragments": 660, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus sanguinis", "strain": "strain=DSM 29303", "accession": "GCA_900106665.1", "taxid": 1545044, "species_taxid": 1545044, "relation_to_type": "type", "validated": true, "ani": 82.7479, "matched_fragments": 705, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus endophyticus", "strain": "strain=SYSUP0003", "accession": "GCA_003286075.1", "taxid": 2233774, "species_taxid": 2233774, "relation_to_type": "type", "validated": true, "ani": 82.225, "matched_fragments": 645, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus solventivorans", "strain": "strain=DSM 6637", "accession": "GCA_900142875.1", "taxid": 53463, "species_taxid": 53463, "relation_to_type": "type", "validated": true, "ani": 82.0544, "matched_fragments": 602, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus salipaludis", "strain": "strain=WN007", "accession": "GCA_002287065.1", "taxid": 2032623, "species_taxid": 2032623, "relation_to_type": "type", "validated": true, "ani": 81.9, "matched_fragments": 646, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus chinensis", "strain": "strain=CGMCC 1.7655", "accession": "GCA_900102885.1", "taxid": 525640, "species_taxid": 525640, "relation_to_type": "type", "validated": true, "ani": 81.885, "matched_fragments": 637, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus aeridis", "strain": "strain=JC501", "accession": "GCA_004923205.2", "taxid": 1966466, "species_taxid": 1966466, "relation_to_type": "type", "validated": true, "ani": 81.022, "matched_fragments": 581, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus binzhouensis", "strain": "strain=wg1", "accession": "GCA_016446475.1", "taxid": 2796149, "species_taxid": 2796149, "relation_to_type": "type", "validated": true, "ani": 80.8476, "matched_fragments": 582, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus mutanolyticus", "strain": "strain=RSP-02", "accession": "GCA_003285265.1", "taxid": 1499308, "species_taxid": 1499308, "relation_to_type": "type", "validated": true, "ani": 80.426, "matched_fragments": 520, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus shandongensis", "strain": "strain=wg2", "accession": "GCA_017315735.1", "taxid": 2816048, "species_taxid": 2816048, "relation_to_type": "type", "validated": true, "ani": 80.2376, "matched_fragments": 520, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus everestensis", "strain": "strain=S8-55", "accession": "GCA_021491915.1", "taxid": 2903900, "species_taxid": 2903900, "relation_to_type": "type", "validated": true, "ani": 79.5735, "matched_fragments": 438, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus nototheniae", "strain": "strain=I-41R45", "accession": "GCA_004335005.1", "taxid": 2489002, "species_taxid": 2489002, "relation_to_type": "type", "validated": true, "ani": 79.4446, "matched_fragments": 467, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus tegillarcae", "strain": "strain=BM15", "accession": "GCA_002847305.1", "taxid": 1529068, "species_taxid": 1529068, "relation_to_type": "type", "validated": true, "ani": 78.2782, "matched_fragments": 405, "total_fragments": 1010, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002105555.1", "gtdb_species": "s__Paracoccus contaminans", "ani": 100.0, "matched_fragments": 1009, "total_fragments": 1010, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Paracoccus", "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_000763805.1", "gtdb_species": "s__Paracoccus sphaerophysae", "ani": 83.7527, "matched_fragments": 680, "total_fragments": 1010, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Paracoccus", "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_004522155.1", "gtdb_species": "s__Paracoccus luteus", "ani": 82.9572, "matched_fragments": 660, "total_fragments": 1010, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Paracoccus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", 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