{ "type": "genome", "identifier": "GCF_900094705.1", "organism": "Chitinophaga costaii", "title": "Chitinophaga costaii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900094705.1", "bioproject": "PRJNA224116", "biosample": "SAMN05216457", "wgs_master": "FMAR00000000.1", "refseq_category": "na", "taxid": "1335309", "species_taxid": "1335309", "organism_name": "Chitinophaga costaii", "infraspecific_name": "strain=A37T2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/08/04", "asm_name": "IMG-taxon 2671180112 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900094705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/094/705/GCF_900094705.1_IMG-taxon_2671180112_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5074440", "genome_size_ungapped": "5074440", "gc_percent": "47.500000", "replicon_count": "0", "scaffold_count": "56", "contig_count": "56", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900094705.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4145", "protein_coding_gene_count": "4067", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-08-04", "dateModified": "2016-08-04", "datePublished": "2016-08-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Chitinophaga costaii" ], "sample_taxid": [ "1335309" ], "sample_host_organism": [ "Pinus pinaster" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Portugal:Avo, Oliveira do Hospital" ], "sample_host_location_id": [], "data_size": "1.440 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)": "5074440", "Number of Sequences": "56", "Longest Sequences (bp)": "780966", "N50 (bp)": "236714", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.6", "Number of CDSs": "4025", "Average Protein Length": "357.6", "Coding Ratio (%)": "85.1", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chitinophaga costaii", "strain": "strain=A37T2", "accession": "GCA_900094705.1", "taxid": 1335309, "species_taxid": 1335309, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1661, "total_fragments": 1664, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chitinophaga costaii", "strain": "strain=A37T2", "accession": "GCA_003071385.1", "taxid": 1335309, "species_taxid": 1335309, "relation_to_type": "type", "validated": true, "ani": 99.9996, "matched_fragments": 1660, "total_fragments": 1664, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Chitinophaga parva", "strain": "strain=LY-1", "accession": "GCA_003071345.1", "taxid": 2169414, "species_taxid": 2169414, "relation_to_type": "type", "validated": true, "ani": 79.7985, "matched_fragments": 821, "total_fragments": 1664, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga lutea", "strain": "strain=ZY74", "accession": "GCA_003813775.1", "taxid": 2488634, "species_taxid": 2488634, "relation_to_type": "type", "validated": true, "ani": 77.109, "matched_fragments": 192, "total_fragments": 1664, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga vietnamensis", "strain": "strain=BD 01", "accession": "GCA_902167635.1", "taxid": 2593957, "species_taxid": 2593957, "relation_to_type": "type", "validated": true, "ani": 77.0114, "matched_fragments": 214, "total_fragments": 1664, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga fulva", "strain": "strain=G-6-1-13", "accession": "GCA_012927205.1", "taxid": 2728842, "species_taxid": 2728842, "relation_to_type": "type", "validated": true, "ani": 76.9559, "matched_fragments": 212, "total_fragments": 1664, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga rupis", "strain": "strain=DSM 21039", "accession": "GCA_900109685.1", "taxid": 573321, "species_taxid": 573321, "relation_to_type": "type", "validated": true, "ani": 76.9479, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga agrisoli", "strain": "strain=BN140078", "accession": "GCA_008386695.1", "taxid": 2607653, "species_taxid": 2607653, "relation_to_type": "type", "validated": true, "ani": 76.7496, "matched_fragments": 231, "total_fragments": 1664, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga chungangae", "strain": "strain=MAH-28", "accession": "GCA_017742215.1", "taxid": 2821488, "species_taxid": 2821488, "relation_to_type": "type", "validated": true, "ani": 76.6394, "matched_fragments": 213, "total_fragments": 1664, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900094705.1", "gtdb_species": "s__Chitinophaga costaii", "ani": 100.0, "matched_fragments": 1661, "total_fragments": 1664, "gtdb_taxonomy": 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