{ "type": "genome", "identifier": "GCF_900187945.1", "organism": "Arboricoccus pini", "title": "Arboricoccus pini", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900187945.1", "bioproject": "PRJNA224116", "biosample": "SAMN07250955", "wgs_master": "FYEH00000000.1", "refseq_category": "reference genome", "taxid": "1963835", "species_taxid": "1963835", "organism_name": "Arboricoccus pini", "infraspecific_name": "strain=B29T1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/06/24", "asm_name": "IMG-taxon 2693429500 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900187945.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/187/945/GCF_900187945.1_IMG-taxon_2693429500_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4065473", "genome_size_ungapped": "4065473", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "28", "contig_count": "28", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900187945.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3734", "protein_coding_gene_count": "3630", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-06-24", "dateModified": "2017-06-24", "datePublished": "2017-06-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Arboricoccus pini" ], "sample_taxid": [ "1963835" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Not collected" ], "sample_host_location_id": [], "data_size": "1.135 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)": "4065473", "Number of Sequences": "28", "Longest Sequences (bp)": "600306", "N50 (bp)": "294770", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.1", "Number of CDSs": "3678", "Average Protein Length": "324.2", "Coding Ratio (%)": "88.0", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Arboricoccus pini", "strain": "strain=B29T1", "accession": "GCA_900187945.1", "taxid": 1963835, "species_taxid": 1963835, 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2023338, "species_taxid": 2023338, "relation_to_type": "type", "validated": true, "ani": 75.7138, "matched_fragments": 112, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseococcus thiosulfatophilus", "strain": "strain=RB-3", "accession": "GCA_017311575.1", "taxid": 35813, "species_taxid": 35813, "relation_to_type": "type", "validated": true, "ani": 75.6813, "matched_fragments": 84, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arenibaculum pallidiluteum", "strain": "strain=SYSU D00532", "accession": "GCA_017355985.1", "taxid": 2812559, "species_taxid": 2812559, "relation_to_type": "type", "validated": true, "ani": 75.6798, "matched_fragments": 115, "total_fragments": 1343, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus contaminans", "strain": "strain=RKI 16-01929T=LMG 29738T=CCM 8701T=CIP 111112T", "accession": "GCA_002105555.1", "taxid": 1945662, 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