{ "type": "genome", "identifier": "GCF_000702745.1", "organism": "Metamycoplasma cloacale ATCC 35276", "title": "Metamycoplasma cloacale ATCC 35276", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000702745.1", "bioproject": "PRJNA224116", "biosample": "SAMN02841208", "wgs_master": "JNJL00000000.1", "refseq_category": "na", "taxid": "1408455", "species_taxid": "92401", "organism_name": "Metamycoplasma cloacale ATCC 35276", "infraspecific_name": "strain=ATCC 35276", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/06/11", "asm_name": "ASM70274v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000702745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/702/745/GCF_000702745.1_ASM70274v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "661755", "genome_size_ungapped": "661755", "gc_percent": "27.000000", "replicon_count": "0", "scaffold_count": "16", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000702745.1-RS_2024_04_05", "annotation_date": "2024-04-05", "total_gene_count": "597", "protein_coding_gene_count": "548", "non_coding_gene_count": "42", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-06-11", "dateModified": "2014-06-11", "datePublished": "2014-06-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Metamycoplasma cloacale ATCC 35276" ], "sample_taxid": [ "1408455" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.180 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)": "661755", "Number of Sequences": "16", "Longest Sequences (bp)": "134407", "N50 (bp)": "73066", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "27.0", "Number of CDSs": "1099", "Average Protein Length": "136.1", "Coding Ratio (%)": "67.8", "Number of rRNAs": "2", "Number of tRNAs": "31", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Metamycoplasma cloacale", "strain": "strain=ATCC 35276", "accession": "GCA_000702745.1", "taxid": 92401, "species_taxid": 92401, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 212, "total_fragments": 212, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Metamycoplasma cloacale", "strain": "strain=NCTC10199", "accession": "GCA_900660735.1", "taxid": 92401, "species_taxid": 92401, "relation_to_type": "type", "validated": true, "ani": 99.9977, "matched_fragments": 212, "total_fragments": 212, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Metamycoplasma cloacale", "strain": "strain=NCTC 10199", "accession": "GCA_003269445.1", "taxid": 92401, "species_taxid": 92401, "relation_to_type": "type", "validated": true, "ani": 99.9975, "matched_fragments": 212, "total_fragments": 212, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Metamycoplasma subdolum", "strain": "strain=ATCC 29870", "accession": "GCA_003688445.1", "taxid": 92407, "species_taxid": 92407, "relation_to_type": "type", "validated": true, "ani": 78.3727, "matched_fragments": 50, "total_fragments": 212, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Metamycoplasma falconis", "strain": "strain=ATCC 51372", "accession": "GCA_006385795.1", "taxid": 92403, "species_taxid": 92403, "relation_to_type": "type", "validated": true, "ani": 78.2879, "matched_fragments": 52, "total_fragments": 212, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Metamycoplasma orale", "strain": "strain=NCTC10112", "accession": "GCA_900660435.1", "taxid": 2121, "species_taxid": 2121, "relation_to_type": "type", "validated": true, "ani": 77.5434, "matched_fragments": 55, "total_fragments": 212, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Metamycoplasma orale", "strain": "strain=ATCC 23714", "accession": "GCA_000420105.1", "taxid": 2121, "species_taxid": 2121, "relation_to_type": "type", "validated": true, "ani": 77.4664, "matched_fragments": 54, "total_fragments": 212, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900660735.1", "gtdb_species": "s__Metamycoplasma cloacale", "ani": 99.9977, "matched_fragments": 212, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "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": 3, "status": "conclusive" }, { "accession": "GCF_000702805.1", "gtdb_species": "s__Metamycoplasma anseris", "ani": 79.8121, "matched_fragments": 99, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "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": "GCF_000085865.1", "gtdb_species": "s__Metamycoplasma hominis", "ani": 78.8813, "matched_fragments": 55, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "97.80", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.91", "num_clustered_genomes": 51, "status": "-" }, { "accession": "GCF_003688445.1", "gtdb_species": "s__Metamycoplasma subdolum", "ani": 78.3727, "matched_fragments": 50, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_006385795.1", "gtdb_species": "s__Metamycoplasma falconis", "ani": 78.2879, "matched_fragments": 52, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_003332325.1", "gtdb_species": "s__Metamycoplasma phocidae", "ani": 78.2275, "matched_fragments": 50, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900660725.1", "gtdb_species": "s__Metamycoplasma arginini", "ani": 77.9716, "matched_fragments": 64, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_900476125.1", "gtdb_species": "s__Metamycoplasma alkalescens", "ani": 77.6138, "matched_fragments": 50, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.14", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000420105.1", "gtdb_species": "s__Metamycoplasma orale", "ani": 77.4664, "matched_fragments": 54, "total_fragments": 212, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Metamycoplasmataceae;g__Metamycoplasma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Metamycoplasma", "cloacale", "ATCC", "35276" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }