LOCUS       CP093091                4286 bp    DNA     circular BCT 05-MAY-2022
DEFINITION  Salmonella enterica strain PNUSAS039582 plasmid pPNUSAS039582_3,
            complete sequence.
ACCESSION   CP093091
VERSION     CP093091.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN09011259
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4286)
  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  JOURNAL   Unpublished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 4286)
  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 (28-JUL-2018) Enteric Diseases Laboratory Branch, Centers
            for Disease Control and Prevention, 1600 Clifton Rd., MS C03,
            Atlanta, GA 30333, USA
REFERENCE   3  (bases 1 to 4286)
  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                     :: PNUSAS039582_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 252x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/04/2022 09:54:59
            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)                     :: 4,790
            CDSs (total)                      :: 4,662
            Genes (coding)                    :: 4,539
            CDSs (with protein)               :: 4,539
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 49 of 123
            Pseudo Genes (incomplete)         :: 87 of 123
            Pseudo Genes (internal stop)      :: 25 of 123
            Pseudo Genes (multiple problems)  :: 34 of 123
            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..4286
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS039582"
                     /db_xref="taxon:28901"
                     /plasmid="pPNUSAS039582_3"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            complement(join(4275..4286,1..1236))
                     /locus_tag="DEM16_23925"
     CDS             complement(join(4275..4286,1..1236))
                     /locus_tag="DEM16_23925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001522448.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="UPX71671.1"
                     /translation="MIKFVDLFSGTGGIRLGFEQAMKEIGLSTKCVKSSEIDKKACETY
                     KLNFDEESYCDIHDVDIDESFDVLLAGFPCQAFSYAGKQLGFADTRGTLFFEVERIIKK
                     NKPKLCLLENVRGLTSHDKGRTFSTILKSLHNLGYHVEYRLLNTSNFGVPQNRVRIYII
                     ASLEKEVTLTIPNDLGAKDTHNYKPSKGGHDFYTESKVSDILEDSPDESYDCSDWFKQR
                     LEDIFEGDLNKVHGIRLIDTRNGNSLHSWDLGLKGECSNDEITFMNLLIANRRKHIFGT
                     HQDGKALSKAQIETFFKHSETTNIIKNLIKKGYLKEKNGLYNPVCGNMSFEVFKFLDPN
                     KVSITLTASDANRLGVYHNNRLRRLTPRECARLQGYPDSYILHPKDSMAYKQLGNAVSV
                     PVIKNIFLDIMKNNFI"
                     /name="DNA cytosine methyltransferase"
     gene            complement(1233..2243)
                     /locus_tag="DEM16_23930"
     CDS             complement(1233..2243)
                     /locus_tag="DEM16_23930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000395670.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="UPX71672.1"
                     /translation="MEFQELENSACLYWPKELAERAASISAISPLIETQDEFLSILTIS
                     TNKPTSCFDAVRLCNKISPNLFVKHLMVLSDIGGERLHRFFKDLDKIYPDRIMEFNIGN
                     SSYSYQFNSNRAWTTKNLNVEKSRLLQPVSDFTREMLDVCMLILWGGNTINNTNLPTEI
                     ENNCVLGNLIGNKEAIEQFVKERYIMVSRQTGGATANDLGHICEIFIKEKLYKLIDNNI
                     SLDGHHIDGVTHNDKDLTTFDIVAKNTTTKKCVGIEISFQVTTNSTIERKAGLAKSRRD
                     LLNSRGHKIAYVIDGSGNFQRSNAIKTIINHSDMTVNFSDNGINSLATFICETLK"
                     /name="hypothetical protein"
     gene            complement(3266..3460)
                     /locus_tag="DEM16_23935"
     CDS             complement(3266..3460)
                     /locus_tag="DEM16_23935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="UPX71670.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          3101..3186
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="8.58e-38"
     Typing          3497..3595
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          3720..3975
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.124"
                     /coverage="89.0"
                     /evalue="5.65e-115"
     Typing          complement(2531..3088)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.286"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 attcttcatt atatcaagaa aaatattttt aatgactggt acgcttacag cattccctaa
       61 ttgtttatat gccatgctat cttttgggtg taagatatat gagtctgggt aaccttgtag
      121 tcttgcgcat tctcttggcg taaggcgtcg cagtctattg ttgtgataga ctccaagtct
      181 attggcatca gatgccgtaa gtgtaattga cactttattt gggtcaagga atttgaatac
      241 ttcaaaagac atatttccgc aaactgggtt gtatagtccg tttttctctt taaggtaacc
      301 ctttttaatt agatttttta ttatgttggt ggtttcgcta tgtttaaaaa atgtttcaat
      361 ttgtgctttt gacaaagcct tgccgtcttg gtgtgtgcca aaaatatgct ttctacggtt
      421 tgcaattaat aaattcatga aagttatttc atcatttgag cactcgcctt ttagcccaag
      481 atcccaagag tgcaaggagt ttccgttcct tgtgtcaatt agcctgattc catgaacttt
      541 atttaggtca ccttcaaaaa tgtcttcaag gcgttgcttg aaccaatcgc tgcaatcata
      601 tgactcgtct ggactatcct ctagtatgtc agaaactttt gattctgtat aaaaatcatg
      661 accacctttg gatggtttgt aattgtgcgt atctttggct ccaagatcat taggaatagt
      721 aagtgttacc tctttttcta atgaggctat tatatatatt ctaaccctat tttgagggac
      781 accaaaatta cttgtgttta atagtctgta ttcaacatga taccctaaat tatgaagaga
      841 ttttaatatt gttgaaaatg ttcttccttt atcatgtgaa gttaatccac gcacattctc
      901 caaaagacat aacttaggct tgtttttctt tatgattctt tctacttcaa aaaataatgt
      961 gcctcgggtg tctgcaaaac caagttgttt tccagcataa gagaacgcct gacaaggaaa
     1021 tcctgccaat aaaacatcga agctttcatc tatatcaaca tcatgtatat cacaatatga
     1081 ttcttcgtcg aagttaagtt tgtatgtttc gcatgctttt ttgtcaattt ctgagctttt
     1141 tacgcatttt gttgacaatc caatttcttt catggcttgc tcaaaaccaa gtctaatacc
     1201 acctgtgcca gaaaaaaggt caacaaattt aatcatttca atgtctcgca gatgaatgtt
     1261 gctagtgaat ttataccatt atctgaaaag ttaacggtca tgtcactatg gttaattatt
     1321 gttttgatgg catttgaacg ctgaaaatta ccagacccat caatcacata tgctatttta
     1381 tgtcctcttg aattgagcaa atctcttctg cttttggcta atcctgcttt tctttctatt
     1441 gttgagtttg ttgtaacttg aaaacttatt tcaataccaa cacatttttt tgttgttgtg
     1501 ttttttgcta caatatcaaa agtcgtaaga tctttatcgt tatgagttac accatcgata
     1561 tggtgtccat ctagagatat attgttatca ataagcttgt aaagtttttc ttttataaag
     1621 atctcgcata tgtgtccaag atcatttgcc gttgcacctc ctgtttgcct gctaaccatt
     1681 atatatcttt cttttacaaa ctgttctatt gcttctttgt ttccaattaa attccccaaa
     1741 acacagttat tttctatttc ggttggaaga tttgtattgt ttatagtatt acctccccat
     1801 aggatcagca tgcaaacatc aagcatttca cgtgtaaaat cacttacagg ttgcaagagc
     1861 cgtgattttt ccacgtttaa attcttggtt gtccatgctc tattgctatt gaattggtaa
     1921 gagtaagagc tatttcctat attgaactcc attattctgt cggggtagat cttatctaaa
     1981 tctttaaaga agcgatgaag tctttcgcct ccaatatctg acaaaaccat taagtgcttg
     2041 acaaataggt tgggtgatat cttattgcat aaccgtacgg catcaaaaca agatgtaggc
     2101 ttatttgttg atattgttag tattgataaa aattcatctt gggtctctat aagagggctt
     2161 atggcgctaa tagatgctgc tctttctgca agttctttgg gccaatataa gcatgcgcta
     2221 ttttctaatt cttggaactc catgattatt ccttggtaaa actatccaaa tagaccttga
     2281 gttacacccc tatgatgggt aatctctacg ggcgtaaacg aaaaaaccca cgttctcagg
     2341 cgtgggtttt tcgaaggtta gaagtttctc aggctttcta acccaaggta acagggcgta
     2401 caagaccgct gccaccaaat ctgtcctttc agtgtagccg cagtcgggcc ttcacttcaa
     2461 gaactccgta tcagcaattt cttgtacacc ctctaccaat ggctgctgac agtggcgtta
     2521 agtcgtgtct taccgggttg gactcaagac gatagttacc ggataaggcg cagcggtcgg
     2581 gctgaacggg gggttcgtgc acacagccca gcttggagcg aacggcctac accgagccga
     2641 gataccaaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga aaggcggaca
     2701 ggtatccggt aagcggcagg gtcggaacag gagagcgcac gagggagctt ccagggggaa
     2761 acgcctggta tctttatagt cctgtcgggt ttcgccacct ctgacttgag cgtcgatttc
     2821 tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc cagcggcgtg gccttttccg
     2881 ggttcttgtt ttttgctcac atgtttcctt tggcgttatc ccctgattct gtggataacc
     2941 gcattaccgt ctttgagtga gctgataccg ctcgccgcag ccgaacgacc gagcgcagcg
     3001 agtcagtgag cgaggaagcg gaaaagcgcc tggacgcgca ttttctcctt acgcatctgt
     3061 gcggcatttc acacccggca tggggcactt ttcatacaat ctgcactgat gccgcatagt
     3121 taagccagta tacactccgc tatcgctacg tgactgggtc atggctgcgc cccgacaccc
     3181 gctaaaaccc cctgacgcgc cctgacgggc ttgtctgctg acgaaaacgc ccacgggaaa
     3241 gccgtgaccg cctccgtcag cttcgttatg ttcctgtttc actttcggcc tcaaagcgaa
     3301 tctggatgct gttctggagt tcttctgcga gttcgtgcag tcgttcgcac atggccgcct
     3361 gttcgtcggc atccagagca tccagttttt caagcagtgt caggctctgg cttttgataa
     3421 atcgcgccat attcagcgca gtttgttgtt gtttgttcac cttccgttgt tctccgtcag
     3481 ttccgggtgt cggggggacc ctgagcaggt ggtaattgta agacgttgcg ggcgacggta
     3541 ttacaattgc acatcctgtc ctgtttcttt aggacgtatc atggcacagc atatcaactg
     3601 ataaataatc cctgtgcagt gcagccgctg ttgcataaaa tttcgctctg cgtcgagtgt
     3661 ttcttaatca ataattccgc tgatactccg gaaaaacgcg agtctgttct catgcctgaa
     3721 atgcccacac cccacgcaaa aacaattttt tgctgatttt tctttataaa tagagagtta
     3781 tgacaaatta gttcttcttg ctctctttgt gatatttaaa aaagcggtgt cggcgcggtg
     3841 ttgtagctgc gccaacaccg ctttttaggg gtggtactga ctattttcat aaaaaacatc
     3901 actttatatt aggggtgctg ctagcggcgc ggtgtgtttt tttacaggac gcccctgggg
     3961 gcgctgctag gggtgtctgt tcagatatgt agcaatgagt cagggattca cgaactgaaa
     4021 atgtccgaaa atgtgcctta tgggcaccgt atgtaaccaa accgatcgcc attcactttc
     4081 atgcatagct atgcagtgag ctgaaagcga tcctgacgca tttttccggt ttttactggg
     4141 taaaacatct ctttttgcgg tatctgcgtc agaatcgcgt tcagcgcgtt ttagcggtgc
     4201 gcgtaatgcg acgttatggt aaatctgtta aatttaatta aataaccata gagcagtttt
     4261 gctagtaata tggtttatat aaagtt
//
