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GenBank: AARFTO000000000.1
LOCUS AARFTO010000000 194 rc DNA linear BCT 02-APR-2020 DEFINITION Escherichia coli O157:H7 strain CFSAN077274, whole genome shotgun sequencing project. ACCESSION AARFTO000000000 VERSION AARFTO000000000.1 DBLINK BioProject: PRJNA230969 BioSample: SAMN11942990 Sequence Read Archive: SRR9188684 KEYWORDS WGS; GMI. SOURCE Escherichia coli O157:H7 ORGANISM Escherichia coli O157:H7 Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 194) CONSRTM GenomeTrakr network: Whole genome sequencing for foodborne pathogen traceback TITLE Direct Submission JOURNAL Submitted (19-FEB-2020) Center for Food Safety and Applied Nutrition, US Food and Drug Administration, 5100 Paint Branch Pkwy, College Park, MD, USA COMMENT The Escherichia coli O157:H7 whole genome shotgun (WGS) project has the project accession AARFTO000000000. This version of the project (01) has the accession number AARFTO010000000, and consists of sequences AARFTO010000001-AARFTO010000194. The annotation was added by the assembly submitters using the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about stand-alone PGAP can be found here: https://github.com/ncbi/pgap/ This draft WGS assembly was generated by running SKESA to generate a de-novo assembly. The de-novo assembly was then concatenated with contigs generated using a guided assembler using antimicrobial resistance genes as baits to comprehensively catalog the set of resistance genes in the isolate. Note, some parts of the contigs derived from the guided assembler may overlap de-novo contigs, and other guided assembler contigs. De-novo contigs can be differentiated from guided assembler contigs by their names , which include either 'denovo' or 'guided'. ##Genome-Assembly-Data-START## Assembly Date :: 19-FEB-2020 Assembly Method :: SKESA v. 2.2 Assembly Name :: PDT000517894.2 Long Assembly Name :: NCBI Pathogen Detection Assembly PDT000517894.2 Genome Coverage :: 60x Sequencing Technology :: ILLUMINA ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Date :: 02/20/2020 16:36:04 Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Provider :: NCBI Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Annotation Software revision :: 2020-02-06.build4373 Genes (total) :: 5,618 CDSs (total) :: 5,522 Genes (coding) :: 5,324 CDSs (with protein) :: 5,324 Genes (RNA) :: 96 rRNAs :: 1, 1, 2 (5S, 16S, 23S) complete rRNAs :: 1 (5S) partial rRNAs :: 1, 2 (16S, 23S) tRNAs :: 84 ncRNAs :: 8 Pseudo Genes (total) :: 198 CDSs (without protein) :: 198 Pseudo Genes (ambiguous residues) :: 0 of 198 Pseudo Genes (frameshifted) :: 96 of 198 Pseudo Genes (incomplete) :: 77 of 198 Pseudo Genes (internal stop) :: 55 of 198 Pseudo Genes (multiple problems) :: 24 of 198 CRISPR Arrays :: 1 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..194 /organism="Escherichia coli O157:H7" /mol_type="genomic DNA" /strain="CFSAN077274" /isolation_source="cattle manure" /db_xref="taxon:83334" /geo_loc_name="USA: CA" /collection_date="2017-07-10" /collected_by="FDA" WGS AARFTO010000001-AARFTO010000194 //
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