{ "type": "genome", "identifier": "GCF_019669905.1", "organism": "Methylomonas koyamae", "title": "Methylomonas koyamae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Soil Biology and Chemistry, Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019669905.1", "bioproject": "PRJNA224116", "biosample": "SAMD00171893", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "702114", "species_taxid": "702114", "organism_name": "Methylomonas koyamae", "infraspecific_name": "strain=Fw12E-Y", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/02", "asm_name": "ASM1966990v1", "asm_submitter": "Soil Biology and Chemistry, Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University", "gbrs_paired_asm": "GCA_019669905.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/669/905/GCF_019669905.1_ASM1966990v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5102400", "genome_size_ungapped": "5102400", "gc_percent": "56.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019669905.1-RS_2024_04_28", "annotation_date": "2024-04-28", "total_gene_count": "4588", "protein_coding_gene_count": "4477", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-06-02", "dateModified": "2021-06-02", "datePublished": "2021-06-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Methylomonas koyamae" ], "sample_taxid": [ "702114" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Aichi, Anjo, Aichi Agricultural Research Center" ], "sample_host_location_id": [], "data_size": "1.427 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 96.5, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5102400", "Number of Sequences": "2", "Longest Sequences (bp)": "4860954", "N50 (bp)": "4860954", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.1", "Number of CDSs": "4573", "Average Protein Length": "329.4", "Coding Ratio (%)": "88.6", "Number of rRNAs": "9", "Number of tRNAs": "53", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methylomonas koyamae", "strain": "strain=Fw12E-Y", "accession": "GCA_019669905.1", "taxid": 702114, "species_taxid": 702114, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1697, "total_fragments": 1700, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylomonas koyamae", "strain": "strain=JCM 16701", "accession": "GCA_001312005.1", "taxid": 702114, "species_taxid": 702114, "relation_to_type": "suspected-type", "validated": true, "ani": 99.7505, "matched_fragments": 1451, "total_fragments": 1700, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methylomonas denitrificans", "strain": "strain=FJG1", "accession": "GCA_000785705.2", "taxid": 1538553, "species_taxid": 1538553, "relation_to_type": "type", "validated": true, "ani": 80.1661, "matched_fragments": 745, "total_fragments": 1700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylomonas albis", "strain": "strain=EbA", "accession": "GCA_014850955.1", 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"GCF_001644025.1", "gtdb_species": "s__Methylomonas koyamae_A", "ani": 80.4055, "matched_fragments": 678, "total_fragments": 1700, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.40", "min_intra_species_ani": "97.36", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_903064685.1", "gtdb_species": "s__Methylomonas sp903064685", "ani": 80.3553, "matched_fragments": 776, "total_fragments": 1700, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Methylococcales;f__Methylomonadaceae;g__Methylomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": 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