{ "type": "genome", "identifier": "GCF_011762095.1", "organism": "Parvibaculum indicum", "title": "Parvibaculum indicum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011762095.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025142", "wgs_master": "JAASQO000000000.1", "refseq_category": "reference genome", "taxid": "562969", "species_taxid": "562969", "organism_name": "Parvibaculum indicum", "infraspecific_name": "strain=DSM 25305", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/27", "asm_name": "ASM1176209v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_011762095.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/762/095/GCF_011762095.1_ASM1176209v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4020083", "genome_size_ungapped": "4020083", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "37", "contig_count": "37", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011762095.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3852", "protein_coding_gene_count": "3760", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-27", "dateModified": "2020-03-27", "datePublished": "2020-03-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Parvibaculum indicum" ], "sample_taxid": [ "562969" ], "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": "1.117 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)": "4020083", "Number of Sequences": "37", "Longest Sequences (bp)": "479549", "N50 (bp)": "230050", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.0", "Number of CDSs": "3848", "Average Protein Length": "310.3", "Coding Ratio (%)": "89.1", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Parvibaculum indicum", "strain": "strain=DSM 25305", "accession": "GCA_011762095.1", "taxid": 562969, "species_taxid": 562969, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1322, "total_fragments": 1324, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Parvibaculum lavamentivorans", "strain": "strain=DS-1", "accession": "GCA_000017565.1", "taxid": 256618, "species_taxid": 256618, "relation_to_type": "type", "validated": true, "ani": 79.1494, "matched_fragments": 553, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parvibaculum sedimenti", "strain": "strain=HXT-9", "accession": "GCA_009184905.1", "taxid": 2608632, "species_taxid": 2608632, "relation_to_type": "type", "validated": true, "ani": 79.0651, "matched_fragments": 500, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tepidicaulis marinus", "strain": "strain=MA2", "accession": "GCA_000739695.1", "taxid": 1333998, "species_taxid": 1333998, "relation_to_type": "type", "validated": true, "ani": 78.2186, "matched_fragments": 382, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { 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1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jiella endophytica", "strain": "strain=CBS5Q-3", "accession": "GCA_004519335.1", "taxid": 2558362, "species_taxid": 2558362, "relation_to_type": "type", "validated": true, "ani": 76.4475, "matched_fragments": 181, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylorubrum podarium", "strain": "strain=DSM 15083", "accession": "GCA_022179745.1", "taxid": 200476, "species_taxid": 200476, "relation_to_type": "type", "validated": true, "ani": 76.3159, "matched_fragments": 136, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovastum atsumiense", "strain": "strain=G2-11", "accession": "GCA_937425535.1", "taxid": 504468, "species_taxid": 504468, "relation_to_type": "type", "validated": true, "ani": 76.1917, "matched_fragments": 170, "total_fragments": 1324, "ani_threshold": 95, "status": "below_threshold" } ], 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