{ "type": "genome", "identifier": "GCF_900185775.1", "organism": "Bartonella mastomydis", "title": "Bartonella mastomydis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900185775.1", "bioproject": "PRJNA224116", "biosample": "SAMEA104113790", "wgs_master": "FYAY00000000.1", "refseq_category": "reference genome", "taxid": "1820002", "species_taxid": "1820002", "organism_name": "Bartonella mastomydis", "infraspecific_name": "strain=008", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/05/31", "asm_name": "PRJEB21083", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900185775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/185/775/GCF_900185775.1_PRJEB21083", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2045026", "genome_size_ungapped": "2044422", "gc_percent": "38.500000", "replicon_count": "0", "scaffold_count": "12", "contig_count": "14", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900185775.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "1720", "protein_coding_gene_count": "1614", "non_coding_gene_count": "46", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-05-31", "dateModified": "2019-05-31", "datePublished": "2019-05-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Bartonella mastomydis" ], "sample_taxid": [ "1820002" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.567 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)": "2045026", "Number of Sequences": "12", "Longest Sequences (bp)": "1231970", "N50 (bp)": "1231970", "Gap Ratio (%)": "0.030171", "GCcontent (%)": "38.4", "Number of CDSs": "1642", "Average Protein Length": "310.4", "Coding Ratio (%)": "74.8", "Number of rRNAs": "3", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bartonella mastomydis", "strain": "strain=008", "accession": "GCA_900185775.1", "taxid": 1820002, "species_taxid": 1820002, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 674, "total_fragments": 675, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bartonella elizabethae", "strain": "strain=ATCC 49927", "accession": "GCA_902825135.1", "taxid": 807, "species_taxid": 807, "relation_to_type": "type", "validated": true, "ani": 95.9378, "matched_fragments": 614, "total_fragments": 675, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bartonella elizabethae", "strain": "strain=ATCC 49927", "accession": "GCA_000518165.1", "taxid": 807, "species_taxid": 807, "relation_to_type": "type", "validated": true, "ani": 95.8877, "matched_fragments": 609, "total_fragments": 675, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bartonella elizabethae", "strain": "strain=F9251", "accession": "GCA_000278315.1", "taxid": 807, "species_taxid": 807, "relation_to_type": "type", "validated": true, "ani": 95.8435, "matched_fragments": 629, "total_fragments": 675, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bartonella kosoyi", "strain": "strain=Tel Aviv", "accession": "GCA_003606325.3", "taxid": 2133959, 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"matched_fragments": 490, "total_fragments": 675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella henselae", "strain": "strain=FDAARGOS_175", "accession": "GCA_001525625.2", "taxid": 38323, "species_taxid": 38323, "relation_to_type": "type", "validated": true, "ani": 82.1704, "matched_fragments": 490, "total_fragments": 675, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bartonella henselae", "strain": "strain=Houston-1", "accession": "GCA_000046705.1", "taxid": 38323, "species_taxid": 38323, "relation_to_type": "type", "validated": true, "ani": 82.1463, "matched_fragments": 496, "total_fragments": 675, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000518165.1", "gtdb_species": "s__Bartonella elizabethae", "ani": 95.8877, "matched_fragments": 609, "total_fragments": 675, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "95.98", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCF_003606325.2", "gtdb_species": "s__Bartonella kosoyi", "ani": 93.1662, "matched_fragments": 621, "total_fragments": 675, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_003606345.3", "gtdb_species": "s__Bartonella krasnovii", "ani": 91.6011, "matched_fragments": 615, "total_fragments": 675, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_903679515.1", "gtdb_species": "s__Bartonella gabonensis", "ani": 91.1129, "matched_fragments": 558, "total_fragments": 675, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales_A;f__Rhizobiaceae_A;g__Bartonella", "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_000196435.1", "gtdb_species": "s__Bartonella tribocorum", "ani": 90.1353, "matched_fragments": 620, "total_fragments": 675, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Bartonella", "mastomydis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }