LOCUS       CP093119                2289 bp    DNA     circular BCT 06-MAY-2022
DEFINITION  Salmonella enterica strain 2016AM-0673 plasmid p2016AM-0673_3,
            complete sequence.
ACCESSION   CP093119
VERSION     CP093119.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN13512702
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2289)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Twenty-one complete Salmonella enterica serotype Hadar genomes
            collected from patients in the United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2289)
  AUTHORS   Tarr,C.L., Trees,E., Katz,L.S., Carleton-Romer,H.A., Stroika,S.,
            Kucerova,Z., Roache,K.F., Sabol,A.L., Besser,J. and Gerner-Smidt,P.
  CONSRTM   PulseNet: The National Subtyping Network for Foodborne Disease
            Surveillance
  TITLE     Direct Submission
  JOURNAL   Submitted (10-DEC-2019) Enteric Diseases Laboratory Branch, Centers
            for Disease Control and Prevention, 1600 Clifton Rd., MS C03,
            Atlanta, GA 30333, USA
REFERENCE   3  (bases 1 to 2289)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAR-2022) EDLB, Centers for Disease Control and
            Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: 2016AM-0673_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 143x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/05/2022 15:19:04
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,545
            CDSs (total)                      :: 4,420
            Genes (coding)                    :: 4,310
            CDSs (with protein)               :: 4,310
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 110
            CDSs (without protein)            :: 110
            Pseudo Genes (ambiguous residues) :: 0 of 110
            Pseudo Genes (frameshifted)       :: 44 of 110
            Pseudo Genes (incomplete)         :: 83 of 110
            Pseudo Genes (internal stop)      :: 22 of 110
            Pseudo Genes (multiple problems)  :: 35 of 110
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..2289
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="2016AM-0673"
                     /db_xref="taxon:28901"
                     /plasmid="p2016AM-0673_3"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            join(1312..2289,1..6)
                     /locus_tag="GPA80_22715"
     CDS             join(1312..2289,1..6)
                     /locus_tag="GPA80_22715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="UPY34851.1"
                     /translation="MKHDKLQNLTDYSPSDSPWDAHRSVSDDVGGIYLMASEFERYASR
                     MASCGGLLRFGWSTLKETGETRLRLRSAEFCRVRHCPVCQWRRSLMWQARFYQALPRVV
                     AAYPDSRWMFLTLTVRNCDIADLGDTLTAMNAAFQRMKVRKEFRPVHGWIRTTEVTRGN
                     DGSAHPHFHTLMMVPPGMLNGKSYVTHAEWVALWRDVLRVNYDPNVDIRAVKPRRPKNG
                     ESLASVTAELVRGAVAETLKYSTKPSDMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LEQETDQDMVIADDISEGDDDGTRIAFEWNRPVKKYRRAPEKDKSD"
                     /name="protein rep"
     gene            complement(216..413)
                     /locus_tag="GPA80_22720"
     CDS             complement(216..413)
                     /locus_tag="GPA80_22720"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UPY34852.1"
                     /translation="MNQTDQLDRMIADIKQVIQKNTGDMVGADVMLEKADGTGKMQITI
                     CIKNISDMKIAFRQLPDKTG"
                     /name="hypothetical protein"
     gene            787..978
                     /locus_tag="GPA80_22725"
     CDS             787..978
                     /locus_tag="GPA80_22725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020324555.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UPY34853.1"
                     /translation="MIVRLDNRLFEILDEMGARVDREMFMAAYAQRKAEKENDPRHVRQ
                     RKMTQLTHDLMSATDPEL"
                     /name="hypothetical protein"
ORIGIN
        1 gactgacccg ctacggcggg ttttttattg ggtgtcgggg ctttgccctg accaagaatg
       61 ttttttgaag ccgactgtgt gcaggcggtt caacaaaaca catcttgtct ttttttcgtg
      121 cagagtttga ttttagaaat ctgcaagggg actgttaatc ccgtgctatg aatggctata
      181 aaaaaacctg caggtaattt gagcttaagc tgatatcagc ctgttttatc tggtagttgt
      241 ctgaatgcaa ttttcatatc agaaatattt ttgatgcaga tagttatctg catcttccct
      301 gttccatctg ctttttccag catcacatct gcgccaacca tgtcacctgt atttttctga
      361 atcacttgtt tgatatcagc aatcatgcgg tctaattgat ctgtttgatt catgtttttt
      421 ggattccttt ctgttctatc gatgcgcact tcaaactgga gaatatcgcc atgctaagaa
      481 ttatcctaaa aaccattcag accagggaca agatgtgttt tgtagcaccg ccacacatgg
      541 cagcaccaca aaacctcttg gtcagggctt agccccgaca cccgccaacg cctcacgagc
      601 cgcgaaaaat ttcgcagccc gctcaccgtt tctgaattcg tcaaacgcta aatcgtgggg
      661 tcccgctggc ttgccagtgg gttccgattt agtgattgac gactgtactc gtggaatact
      721 tgcaggaggt ggttgtgatc acgcagtgag cgcaaccacc tgataagcgt ttttgaggag
      781 gtagacatga tcgtcagact ggataaccgg ctgtttgaga ttctcgatga gatgggtgcg
      841 cgtgtggatc gggaaatgtt catggcggct tatgcgcagc ggaaggctga gaaggaaaat
      901 gatccccggc atgtccgtca gcggaaaatg actcagttga ctcacgattt gatgtcagca
      961 actgaccctg agttgtgagt ctcgcgtgtg cgcgaggcga gagagggtgt tggtcagaaa
     1021 atcgcccgag tttcacgcgc gcgatccttg tatttatacc taagggataa ctctaggatt
     1081 gaaaaccagc cttaagcctt gtggcagtag ggctgagagt ggatttgctg gaaaatggtt
     1141 ttggggttac tctgtcgaga gtggtcgcgt taaaagcgac ccccgcaacg agggcaatcg
     1201 ttcgggggca tgaccacctg acaaattcga atttggtgat acggctttct tcaggtgata
     1261 cggaaatgat accacagcat tccagagcct gcccactacg gagcgggcag catgaaacac
     1321 gataaacttc agaacctcac cgactactcc ccctcggatt cgccgtggga cgctcacaga
     1381 agcgtttccg acgacgtggg agggatttac ctgatggcat ccgaatttga gcgctacgcg
     1441 tcgcgtatgg cctcctgtgg cggtttatta cggttcggct ggtctaccct caaggaaacg
     1501 ggagaaacgc gcctgcggct tcgtagcgcg gaattctgtc gtgttcgtca ctgccctgtc
     1561 tgccagtgga ggcgatccct gatgtggcaa gcccgttttt atcaggcact gccgcgcgtt
     1621 gtcgcggctt atccggattc acgctggatg tttctgacgc tgaccgtccg taattgtgat
     1681 atcgctgatc ttggcgatac gttgacggcg atgaatgcag catttcagcg catgaaagtt
     1741 cgaaaagagt ttcgtccagt tcatggctgg atacgtacca cagaagtaac tcgaggcaat
     1801 gatggcagcg cccatccgca ttttcacacc ctgatgatgg ttccgcctgg aatgctgaac
     1861 gggaaaagtt acgttactca tgctgagtgg gtggcgctat ggcgggatgt tctgcgggta
     1921 aattacgatc ccaatgttga tatccgggct gtgaaaccac gcagaccaaa aaacggtgag
     1981 tcgctggctt ccgttactgc cgaactggtg cgcggcgcgg tggctgagac actgaaatac
     2041 tccactaaac catctgacat ggtggctgat cctgaatggt tcctcgaact gactcgccag
     2101 acgcacaagc gtcgttttgt ggcgactggc ggagcgctga aagacgtgct gaagctggag
     2161 caggaaaccg atcaggatat ggtgatcgcg gatgatattt ccgaaggtga tgacgacgga
     2221 acgcgtatcg cgtttgagtg gaatcgtccg gtgaaaaaat atcggagagc accggaaaaa
     2281 gataaatca
//
