{ "type": "genome", "identifier": "GCF_001400515.1", "organism": "Pseudomonas meliae", "title": "Pseudomonas meliae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Toronto", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001400515.1", "bioproject": "PRJNA224116", "biosample": "SAMN03976274", "wgs_master": "LJQT00000000.1", "refseq_category": "reference genome", "taxid": "86176", "species_taxid": "86176", "organism_name": "Pseudomonas meliae", "infraspecific_name": "strain=ICMP 6289", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/10/20", "asm_name": "PmlICMP6289", "asm_submitter": "University of Toronto", "gbrs_paired_asm": "GCA_001400515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/400/515/GCF_001400515.1_PmlICMP6289", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5097969", "genome_size_ungapped": "5093870", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "504", "contig_count": "504", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001400515.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "4875", "protein_coding_gene_count": "4368", "non_coding_gene_count": "48", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-10-20", "dateModified": "2015-10-20", "datePublished": "2015-10-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas meliae" ], "sample_taxid": [ "86176" ], "sample_host_organism": [ "Melia azedarach" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "1.452 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)": "5097969", "Number of Sequences": "504", "Longest Sequences (bp)": "66928", "N50 (bp)": "25657", "Gap Ratio (%)": "0.092135", "GCcontent (%)": "58.4", "Number of CDSs": "4717", "Average Protein Length": "305.4", "Coding Ratio (%)": "84.8", "Number of rRNAs": "2", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas meliae", "strain": "strain=ICMP6289", "accession": "GCA_001400515.1", "taxid": 86176, "species_taxid": 86176, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1462, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas meliae", "strain": "strain=CFBP 3225", "accession": "GCA_000935675.1", "taxid": 86176, "species_taxid": 86176, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9398, "matched_fragments": 1465, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas savastanoi", "strain": "strain=ICMP4352", "accession": "GCA_001401285.1", "taxid": 29438, "species_taxid": 29438, "relation_to_type": "suspected-type", "validated": true, "ani": 98.707, "matched_fragments": 1388, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas savastanoi", "strain": "strain=CFBP 5062", "accession": "GCA_001538155.1", "taxid": 29438, "species_taxid": 29438, "relation_to_type": "pathovar", "validated": true, "ani": 98.6919, "matched_fragments": 1415, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas amygdali", "strain": "strain=DSM 105780", "accession": "GCA_022828345.1", "taxid": 47877, "species_taxid": 47877, "relation_to_type": "pathovar", "validated": true, "ani": 98.6676, "matched_fragments": 1404, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas savastanoi", "strain": "strain=ICMP7711", "accession": "GCA_001483545.1", "taxid": 29438, "species_taxid": 29438, "relation_to_type": "pathovar", "validated": true, "ani": 98.6617, "matched_fragments": 1368, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas amygdali", "strain": "strain=CFBP 3205", "accession": "GCA_000935645.1", "taxid": 47877, "species_taxid": 47877, "relation_to_type": "suspected-type", "validated": true, "ani": 98.6136, "matched_fragments": 1344, "total_fragments": 1479, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudomonas amygdali", "strain": "strain=ICMP 3918", 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"98.42", "min_intra_species_ani": "97.41", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_009176725.1", "gtdb_species": "s__Pseudomonas_E syringae_M", "ani": 89.7253, "matched_fragments": 1323, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0874, "mean_intra_species_ani": "98.71", "min_intra_species_ani": "98.38", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 59, "status": "-" }, { "accession": "GCF_900103225.1", "gtdb_species": "s__Pseudomonas_E congelans", "ani": 89.698, "matched_fragments": 1311, "total_fragments": 1479, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.60", 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