{ "type": "genome", "identifier": "GCF_002933035.1", "organism": "Rathayibacter iranicus", "title": "Rathayibacter iranicus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Oregon State University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002933035.1", "bioproject": "PRJNA224116", "biosample": "SAMN08438724", "wgs_master": "PSXS00000000.1", "refseq_category": "na", "taxid": "59737", "species_taxid": "59737", "organism_name": "Rathayibacter iranicus", "infraspecific_name": "strain=DSM 7484", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/02/18", "asm_name": "ASM293303v1", "asm_submitter": "Oregon State University", "gbrs_paired_asm": "GCA_002933035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/933/035/GCF_002933035.1_ASM293303v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3389548", "genome_size_ungapped": "3389075", "gc_percent": "67.000000", "replicon_count": "0", "scaffold_count": "79", "contig_count": "79", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002933035.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3243", "protein_coding_gene_count": "3139", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-02-18", "dateModified": "2018-02-18", "datePublished": "2018-02-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Rathayibacter iranicus" ], "sample_taxid": [ "59737" ], "sample_host_organism": [ "Triticum aestivum" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Iran" ], "sample_host_location_id": [], "data_size": "0.936 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)": "3389548", "Number of Sequences": "79", "Longest Sequences (bp)": "339601", "N50 (bp)": "113244", "Gap Ratio (%)": "0.013955", "GCcontent (%)": "67.2", "Number of CDSs": "3233", "Average Protein Length": "301.3", "Coding Ratio (%)": "86.2", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rathayibacter iranicus", "strain": "strain=DSM 7484", "accession": "GCA_002933035.1", "taxid": 59737, "species_taxid": 59737, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1094, "total_fragments": 1096, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rathayibacter iranicus", "strain": "strain=VKM Ac-1602", "accession": "GCA_003149025.1", "taxid": 59737, "species_taxid": 59737, "relation_to_type": "type", "validated": true, "ani": 99.9966, "matched_fragments": 1082, "total_fragments": 1096, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rathayibacter iranicus", "strain": "strain=VKM Ac-1602", "accession": "GCA_009806955.1", "taxid": 59737, "species_taxid": 59737, "relation_to_type": "type", "validated": true, "ani": 99.9954, "matched_fragments": 1079, "total_fragments": 1096, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rathayibacter agropyri", "strain": "strain=VKM Ac-2828", "accession": "GCA_013249015.1", "taxid": 1634927, "species_taxid": 1634927, "relation_to_type": "type", "validated": true, "ani": 89.9557, "matched_fragments": 889, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": 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Ac-2596", "accession": "GCA_004340625.1", "taxid": 1671680, "species_taxid": 1671680, "relation_to_type": "type", "validated": true, "ani": 84.1763, "matched_fragments": 747, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rathayibacter oskolensis", "strain": "strain=VKM Ac-2121", "accession": "GCA_900177245.1", "taxid": 1891671, "species_taxid": 1891671, "relation_to_type": "type", "validated": true, "ani": 82.8247, "matched_fragments": 707, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mariniharenae", "strain": "strain=NEAU-184", "accession": "GCA_008122505.1", "taxid": 2604423, "species_taxid": 2604423, "relation_to_type": "type", "validated": true, "ani": 78.3801, "matched_fragments": 326, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces marinus", "strain": "strain=DSM 26151", "accession": "GCA_021442325.1", "taxid": 1389020, "species_taxid": 1389020, "relation_to_type": "type", "validated": true, "ani": 78.3003, "matched_fragments": 280, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces humatus", "strain": "strain=JCM 14319", "accession": "GCA_021228295.1", "taxid": 279573, "species_taxid": 279573, "relation_to_type": "type", "validated": true, "ani": 78.1115, "matched_fragments": 296, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces archimandritae", "strain": "strain=G127AT", "accession": "GCA_018024495.1", "taxid": 2781962, "species_taxid": 2781962, "relation_to_type": "type", "validated": true, "ani": 78.0605, "matched_fragments": 289, "total_fragments": 1096, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003149025.1", "gtdb_species": 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