{ "type": "genome", "identifier": "GCA_013403015.1", "organism": "Stenotrophomonas maltophilia", "title": "Stenotrophomonas maltophilia", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Rutgers University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013403015.1", "bioproject": "PRJNA643812", "biosample": "SAMN15429100", "wgs_master": "JACBOO000000000.1", "refseq_category": "na", "taxid": "40324", "species_taxid": "40324", "organism_name": "Stenotrophomonas maltophilia", "infraspecific_name": "", "isolate": "Kodiak_364459", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/12", "asm_name": "ASM1340301v1", "submitter": "Rutgers University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/403/015/GCA_013403015.1_ASM1340301v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-12", "dateModified": "2020-07-12", "datePublished": "2020-07-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Stenotrophomonas maltophilia" ], "sample_taxid": [ "40324" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Washington DC, National Museum of Natural History" ], "sample_host_location_id": [], "data_size": "1.255 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": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4536923", "Number of Sequences": "1089", "Longest Sequences (bp)": "47333", "N50 (bp)": "6455", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.4", "Number of CDSs": "3721", "Average Protein Length": "300.1", "Coding Ratio (%)": "73.8", "Number of rRNAs": "0", "Number of tRNAs": "54", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Stenotrophomonas maltophilia", "strain": "strain=NCTC10257", "accession": "GCA_900186865.1", "taxid": 40324, "species_taxid": 40324, "relation_to_type": "type", "validated": true, "ani": 97.8859, "matched_fragments": 918, "total_fragments": 1000, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Stenotrophomonas maltophilia", "strain": "strain=NBRC 14161", "accession": "GCA_001591205.1", "taxid": 40324, "species_taxid": 40324, "relation_to_type": "type", "validated": true, "ani": 97.8371, "matched_fragments": 911, "total_fragments": 1000, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Stenotrophomonas maltophilia", "strain": "strain=ATCC 13637", "accession": "GCA_001997185.1", "taxid": 40324, "species_taxid": 40324, "relation_to_type": "type", "validated": true, "ani": 97.79, "matched_fragments": 910, "total_fragments": 1000, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Stenotrophomonas maltophilia", "strain": "strain=MTCC 434", "accession": "GCA_000597745.1", "taxid": 40324, "species_taxid": 40324, "relation_to_type": "type", "validated": true, "ani": 97.7454, "matched_fragments": 867, "total_fragments": 1000, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Stenotrophomonas sepilia", "strain": "strain=SM16975", "accession": "GCA_003244875.1", "taxid": 2860290, "species_taxid": 2860290, "relation_to_type": "type", "validated": true, "ani": 91.5388, "matched_fragments": 834, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pavanii", "strain": "strain=LMG 25348", "accession": "GCA_900101175.1", "taxid": 487698, "species_taxid": 487698, "relation_to_type": "type", "validated": true, "ani": 91.2442, "matched_fragments": 833, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pavanii", "strain": "strain=DSM 25135", "accession": "GCA_001431565.1", "taxid": 487698, "species_taxid": 487698, "relation_to_type": "type", "validated": true, "ani": 91.1502, "matched_fragments": 804, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pennii", "strain": "strain=Sa5BUN4", "accession": "GCA_014836545.1", "taxid": 2762239, "species_taxid": 2762239, "relation_to_type": "type", "validated": true, "ani": 84.3326, "matched_fragments": 612, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas acidaminiphila", "strain": "strain=DSM 13117", "accession": "GCA_024221815.1", "taxid": 128780, "species_taxid": 128780, "relation_to_type": "type", "validated": true, "ani": 83.6249, "matched_fragments": 537, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stenotrophomonas pictorum", "strain": "strain=JCM 9942", "accession": "GCA_001310775.1", "taxid": 86184, "species_taxid": 86184, "relation_to_type": "type", "validated": true, "ani": 82.8215, "matched_fragments": 375, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas indica", "strain": "strain=PPL560", "accession": "GCA_022669045.1", "taxid": 2912242, "species_taxid": 2912242, "relation_to_type": "type", "validated": true, "ani": 82.5432, "matched_fragments": 543, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xanthomonas translucens", "strain": "strain=ATCC 19319", "accession": "GCA_020880735.1", "taxid": 343, "species_taxid": 343, "relation_to_type": "type", "validated": true, "ani": 82.1516, "matched_fragments": 463, "total_fragments": 1000, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900186865.1", "gtdb_species": "s__Stenotrophomonas maltophilia", "ani": 97.8859, "matched_fragments": 918, "total_fragments": 1000, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Stenotrophomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "97.31", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 234, "status": "conclusive" }, { "accession": "GCF_006974125.1", "gtdb_species": "s__Stenotrophomonas maltophilia_O", "ani": 93.5592, "matched_fragments": 843, "total_fragments": 1000, "gtdb_taxonomy": 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"Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Xanthomonadales", "Xanthomonadaceae", "Stenotrophomonas", "Stenotrophomonas", "maltophilia" ], "_meo": [ { "id": "MEO_0000449", "label": "bone" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }