{ "type": "genome", "identifier": "GCF_000172415.1", "organism": "Paraburkholderia graminis C4D1M", "title": "Paraburkholderia graminis C4D1M", "description": "na", "data type": "Genome sequencing and assembly", "organization": "US DOE Joint Genome Institute (JGI-PGF)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000172415.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441790", "wgs_master": "ABLD00000000.1", "refseq_category": "na", "taxid": "396598", "species_taxid": "60548", "organism_name": "Paraburkholderia graminis C4D1M", "infraspecific_name": "strain=C4D1M", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2008/03/17", "asm_name": "ASM17241v1", "asm_submitter": "US DOE Joint Genome Institute (JGI-PGF)", "gbrs_paired_asm": "GCA_000172415.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/172/415/GCF_000172415.1_ASM17241v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7477263", "genome_size_ungapped": "7477263", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "70", "contig_count": "70", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-16", "total_gene_count": "6728", "protein_coding_gene_count": "6433", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2008-03-17", "dateModified": "2008-03-17", "datePublished": "2008-03-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Paraburkholderia graminis C4D1M" ], "sample_taxid": [ "396598" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "2.070 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 84.72, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7477263", "Number of Sequences": "70", "Longest Sequences (bp)": "673942", "N50 (bp)": "196368", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.9", "Number of CDSs": "6673", "Average Protein Length": "317.8", "Coding Ratio (%)": "85.1", "Number of rRNAs": "0", "Number of tRNAs": "45", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Paraburkholderia graminis", "strain": "strain=C4D1M", "accession": "GCA_000172415.1", "taxid": 60548, "species_taxid": 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"matched_fragments": 1765, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia caledonica", "strain": "strain=NBRC 102488", "accession": "GCA_000685095.1", "taxid": 134536, "species_taxid": 134536, "relation_to_type": "type", "validated": true, "ani": 87.2869, "matched_fragments": 1760, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia dipogonis", "strain": "strain=ICMP 19430", "accession": "GCA_004402975.1", "taxid": 1211383, "species_taxid": 1211383, "relation_to_type": "type", "validated": true, "ani": 85.4937, "matched_fragments": 1544, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia aromaticivorans", "strain": "strain=BN5", "accession": "GCA_002278075.1", "taxid": 2026199, "species_taxid": 2026199, "relation_to_type": "type", "validated": true, "ani": 85.2609, "matched_fragments": 1585, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia haematera", "strain": "strain=LMG 31837", "accession": "GCA_905220975.1", "taxid": 2793077, "species_taxid": 2793077, "relation_to_type": "type", "validated": true, "ani": 84.7982, "matched_fragments": 1398, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia nemoris", "strain": "strain=LMG 31836", "accession": "GCA_905221015.1", "taxid": 2793076, "species_taxid": 2793076, "relation_to_type": "type", "validated": true, "ani": 84.7479, "matched_fragments": 1495, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia domus", "strain": "strain=LMG 31832", "accession": "GCA_905220705.1", "taxid": 2793075, "species_taxid": 2793075, "relation_to_type": "type", "validated": true, "ani": 84.519, "matched_fragments": 1423, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia fungorum", "strain": "strain=ATCC BAA-463", "accession": "GCA_000961515.1", "taxid": 134537, "species_taxid": 134537, "relation_to_type": "suspected-type", "validated": true, "ani": 84.408, "matched_fragments": 1474, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia podalyriae", "strain": "strain=WC7.3b", "accession": "GCA_014397785.1", "taxid": 1938811, "species_taxid": 1938811, "relation_to_type": "type", "validated": true, "ani": 84.1108, "matched_fragments": 1427, "total_fragments": 2458, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 84.72, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000172415.1", "gtdb_species": "s__Paraburkholderia graminis", "ani": 100.0, "matched_fragments": 2453, "total_fragments": 2458, "gtdb_taxonomy": 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