{ "type": "genome", "identifier": "GCF_900155995.1", "organism": "Pseudomonas flexibilis", "title": "Pseudomonas flexibilis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900155995.1", "bioproject": "PRJNA224116", "biosample": "SAMN05421672", "wgs_master": "FTMC00000000.1", "refseq_category": "na", "taxid": "706570", "species_taxid": "706570", "organism_name": "Pseudomonas flexibilis", "infraspecific_name": "strain=ATCC 29606", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/01/14", "asm_name": "IMG-taxon 2681812811 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900155995.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/155/995/GCF_900155995.1_IMG-taxon_2681812811_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": "3760855", "genome_size_ungapped": "3757903", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "42", "contig_count": "42", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900155995.1-RS_2024_07_21", "annotation_date": "2024-07-21", "total_gene_count": "3625", "protein_coding_gene_count": "3513", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-01-14", "dateModified": "2017-01-14", "datePublished": "2017-01-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas flexibilis" ], "sample_taxid": [ "706570" ], "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": "1.034 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)": "3760855", "Number of Sequences": "42", "Longest Sequences (bp)": "426711", "N50 (bp)": "174376", "Gap Ratio (%)": "0.078493", "GCcontent (%)": "65.8", "Number of CDSs": "3531", "Average Protein Length": "320.4", "Coding Ratio (%)": "90.3", "Number of rRNAs": "5", "Number of tRNAs": "59", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas flexibilis", "strain": "strain=ATCC 29606", "accession": "GCA_900155995.1", "taxid": 706570, "species_taxid": 706570, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1227, "total_fragments": 1233, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas flexibilis", "strain": "strain=ATCC 29606", "accession": "GCA_000802425.1", "taxid": 706570, "species_taxid": 706570, "relation_to_type": "type", "validated": true, "ani": 99.9893, "matched_fragments": 1214, "total_fragments": 1233, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas sagittaria", "strain": "strain=JCM 18195", "accession": "GCA_900115715.1", "taxid": 1135990, "species_taxid": 1135990, "relation_to_type": "type", "validated": true, "ani": 82.9321, "matched_fragments": 686, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas oryzae", "strain": "strain=KCTC 32247", "accession": "GCA_900104805.1", "taxid": 1392877, "species_taxid": 1392877, "relation_to_type": "type", "validated": true, "ani": 82.844, "matched_fragments": 702, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas delhiensis", "strain": "strain=CCM 7361", "accession": "GCA_900099945.1", "taxid": 366289, "species_taxid": 366289, "relation_to_type": "type", "validated": true, "ani": 82.6475, "matched_fragments": 787, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aromaticivorans", "strain": "strain=MAP12", "accession": "GCA_019097855.1", "taxid": 2849492, "species_taxid": 2849492, "relation_to_type": "type", "validated": true, "ani": 82.6066, "matched_fragments": 663, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas citronellolis", "strain": "strain=LMG 18378", "accession": "GCA_900112375.1", "taxid": 53408, "species_taxid": 53408, "relation_to_type": "type", "validated": true, "ani": 82.5471, "matched_fragments": 772, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas citronellolis", "strain": "strain=NBRC 103043", "accession": "GCA_002091555.1", "taxid": 53408, "species_taxid": 53408, "relation_to_type": "type", "validated": true, "ani": 82.4784, "matched_fragments": 774, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 82.3739, "matched_fragments": 718, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azotobacter chroococcum subsp. isscasi", "strain": "strain=P205", "accession": "GCA_004327895.1", "taxid": 2528971, "species_taxid": 353, "relation_to_type": "type", "validated": true, "ani": 82.3126, "matched_fragments": 661, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azotobacter chroococcum", "strain": "strain=ATCC 9043", "accession": "GCA_004327905.1", "taxid": 353, "species_taxid": 353, "relation_to_type": "type", "validated": true, "ani": 82.1532, "matched_fragments": 676, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azotobacter beijerinckii", "strain": "strain=DSM 378", "accession": "GCA_900110885.1", "taxid": 170623, "species_taxid": 170623, "relation_to_type": "type", "validated": true, "ani": 82.0903, "matched_fragments": 613, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azotobacter chroococcum", "strain": "strain=DSM 2286", "accession": "GCA_004339665.1", "taxid": 353, "species_taxid": 353, "relation_to_type": "type", "validated": true, "ani": 82.0812, "matched_fragments": 679, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas mangiferae", "strain": "strain=DMKU BBB3-04", "accession": "GCA_007109405.1", "taxid": 2593654, "species_taxid": 2593654, "relation_to_type": "type", "validated": true, "ani": 81.7223, "matched_fragments": 663, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=FDAARGOS_876", "accession": "GCA_016028635.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "suspected-type", "validated": true, "ani": 81.5762, "matched_fragments": 713, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas furukawaii", "strain": "strain=KF707", "accession": "GCA_000262065.3", "taxid": 1149133, "species_taxid": 1149133, "relation_to_type": "type", "validated": true, "ani": 81.5721, "matched_fragments": 722, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", "taxid": 2320867, "species_taxid": 2320867, "relation_to_type": "type", "validated": true, "ani": 81.5489, "matched_fragments": 684, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas insulae", "strain": "strain=UL073", "accession": "GCA_016901015.1", "taxid": 2809017, "species_taxid": 2809017, "relation_to_type": "type", "validated": true, "ani": 81.547, "matched_fragments": 730, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas stutzeri", "strain": "strain=FDAARGOS_875", "accession": "GCA_016028655.1", "taxid": 316, "species_taxid": 316, "relation_to_type": "type", "validated": true, "ani": 81.4396, "matched_fragments": 684, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas indica", "strain": "strain=NBRC 103045", "accession": "GCA_002091635.1", "taxid": 137658, "species_taxid": 137658, "relation_to_type": "type", "validated": true, "ani": 81.4118, "matched_fragments": 736, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas stutzeri", "strain": "strain=CGMCC 1.1803", "accession": "GCA_000219605.1", "taxid": 316, "species_taxid": 316, "relation_to_type": "type", "validated": true, "ani": 81.3939, "matched_fragments": 680, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas eucalypticola", "strain": "strain=NP-1", "accession": "GCA_013374995.1", "taxid": 2599595, "species_taxid": 2599595, "relation_to_type": "type", "validated": true, "ani": 79.9448, "matched_fragments": 580, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfuritortus calidifontis", "strain": "strain=J1A", "accession": "GCA_003967275.1", "taxid": 1914471, "species_taxid": 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"validated": true, "ani": 76.3889, "matched_fragments": 221, "total_fragments": 1233, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000802425.1", "gtdb_species": "s__Pseudomonas_H flexibilis", "ani": 99.9893, "matched_fragments": 1214, "total_fragments": 1233, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_H", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "98.74", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_003205495.1", "gtdb_species": "s__Pseudomonas_E alcaligenes_B", "ani": 82.9875, "matched_fragments": 720, "total_fragments": 1233, "gtdb_taxonomy": 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