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GenBank: AAFJRA000000000.1
LOCUS AAFJRA010000000 94 rc DNA linear BCT 25-JUN-2019 DEFINITION Salmonella enterica subsp. enterica serovar Chailey strain SAL-18-VL-SD-IA-0048, whole genome shotgun sequencing project. ACCESSION AAFJRA000000000 VERSION AAFJRA000000000.1 DBLINK BioProject: PRJNA316457 BioSample: SAMN12056351 Sequence Read Archive: SRR9301061 KEYWORDS WGS. SOURCE Salmonella enterica subsp. enterica serovar Chailey ORGANISM Salmonella enterica subsp. enterica serovar Chailey Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Salmonella. REFERENCE 1 (bases 1 to 94) CONSRTM Veterinary Laboratory Investigation and Response Network TITLE Direct Submission JOURNAL Submitted (13-JUN-2019) Center for Veterinary Medicine, US Food and Drug Administration, 8401 Muirkirk Rd, Laurel, MD, USA COMMENT The Salmonella enterica subsp. enterica serovar Chailey whole genome shotgun (WGS) project has the project accession AAFJRA000000000. This version of the project (01) has the accession number AAFJRA010000000, and consists of sequences AAFJRA010000001-AAFJRA010000094. 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'. Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/ ##Genome-Assembly-Data-START## Assembly Date :: 13-JUN-2019 Assembly Method :: SKESA v. 2.2 Assembly Name :: PDT000522674.1 Long Assembly Name :: NCBI Pathogen Detection Assembly PDT000522674.1 Genome Coverage :: 87x Sequencing Technology :: ILLUMINA ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Date :: 06/14/2019 20:49:12 Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline Annotation Provider :: NCBI Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Annotation Software revision :: 4.8 Genes (total) :: 4,641 CDSs (total) :: 4,542 Genes (coding) :: 4,454 CDSs (with protein) :: 4,454 Genes (RNA) :: 99 rRNAs :: 6, 1, 3 (5S, 16S, 23S) complete rRNAs :: 6 (5S) partial rRNAs :: 1, 3 (16S, 23S) tRNAs :: 73 ncRNAs :: 16 Pseudo Genes (total) :: 88 CDSs (without protein) :: 88 Pseudo Genes (ambiguous residues) :: 0 of 88 Pseudo Genes (frameshifted) :: 40 of 88 Pseudo Genes (incomplete) :: 50 of 88 Pseudo Genes (internal stop) :: 19 of 88 Pseudo Genes (multiple problems) :: 20 of 88 CRISPR Arrays :: 2 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..94 /organism="Salmonella enterica subsp. enterica serovar Chailey" /mol_type="genomic DNA" /strain="SAL-18-VL-SD-IA-0048" /serovar="Chailey" /isolation_source="Porcine Enteric (Sus scrofa domesticus)" /sub_species="enterica" /db_xref="taxon:2564322" /geo_loc_name="USA: NC" /collection_date="2018-11-29" /collected_by="ISUVDL" WGS AAFJRA010000001-AAFJRA010000094 //
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