{ "type": "genome", "identifier": "GCF_014191315.1", "organism": "Bifidobacterium commune", "title": "Bifidobacterium commune", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014191315.1", "bioproject": "PRJNA224116", "biosample": "SAMN12024694", "wgs_master": "JACHWK000000000.1", "refseq_category": "na", "taxid": "1505727", "species_taxid": "1505727", "organism_name": "Bifidobacterium commune", "infraspecific_name": "strain=DSM 28792", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419131v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014191315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/191/315/GCF_014191315.1_ASM1419131v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1511335", "genome_size_ungapped": "1511335", "gc_percent": "54.000000", "replicon_count": "0", "scaffold_count": "26", "contig_count": "26", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014191315.1-RS_2024_09_26", "annotation_date": "2024-09-26", "total_gene_count": "1262", "protein_coding_gene_count": "1169", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Bifidobacterium commune" ], "sample_taxid": [ "1505727" ], "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": "0.431 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 83.33, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "1511335", "Number of Sequences": "26", "Longest Sequences (bp)": "632816", "N50 (bp)": "222926", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "53.8", "Number of CDSs": "1194", "Average Protein Length": "341.1", "Coding Ratio (%)": "80.8", "Number of rRNAs": "4", "Number of tRNAs": "49", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bifidobacterium commune", "strain": "strain=DSM 28792", "accession": "GCA_014191315.1", "taxid": 1505727, "species_taxid": 1505727, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 482, "total_fragments": 488, 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"organism_name": "Bifidobacterium pseudocatenulatum", "strain": "strain=JCM 1200", "accession": "GCA_001025215.1", "taxid": 28026, "species_taxid": 28026, "relation_to_type": "type", "validated": true, "ani": 78.0154, "matched_fragments": 91, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium moukalabense", "strain": "strain=DSM 27321", "accession": "GCA_000522505.1", "taxid": 1333651, "species_taxid": 1333651, "relation_to_type": "type", "validated": true, "ani": 77.8152, "matched_fragments": 89, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium pseudocatenulatum", "strain": "strain=DSM 20438", "accession": "GCA_000173435.1", "taxid": 28026, "species_taxid": 28026, "relation_to_type": "type", "validated": true, "ani": 77.7586, "matched_fragments": 92, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium miconis", "strain": "strain=82T10", "accession": "GCA_019331735.1", "taxid": 2834435, "species_taxid": 2834435, "relation_to_type": "type", "validated": true, "ani": 77.7404, "matched_fragments": 80, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium amazonense", "strain": "strain=MA1", "accession": "GCA_018555435.2", "taxid": 2809027, "species_taxid": 2809027, "relation_to_type": "type", "validated": true, "ani": 77.7257, "matched_fragments": 89, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium myosotis", "strain": "strain=DSM 100196", "accession": "GCA_002259745.1", "taxid": 1630166, "species_taxid": 1630166, "relation_to_type": "type", "validated": true, "ani": 77.6735, "matched_fragments": 88, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium saguini", "strain": "strain=DSMZ 23967", "accession": "GCA_017378515.1", "taxid": 762210, "species_taxid": 762210, "relation_to_type": "type", "validated": true, "ani": 77.6699, "matched_fragments": 80, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium pseudocatenulatum", "strain": "strain=DSM 20438", "accession": "GCA_000771445.1", "taxid": 28026, "species_taxid": 28026, "relation_to_type": "type", "validated": true, "ani": 77.5925, "matched_fragments": 87, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium ruminantium", "strain": "strain=DSM 6489", "accession": "GCA_000770925.1", "taxid": 78346, "species_taxid": 78346, "relation_to_type": "type", "validated": true, "ani": 77.4564, "matched_fragments": 88, "total_fragments": 488, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium ruminantium", "strain": "strain=DSM 6489", "accession": "GCA_000687635.1", "taxid": 78346, 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