LOCUS       CP119476                2262 bp    DNA     linear   BCT 16-MAR-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Newport strain CVM 46267
            plasmid pFSIS12033266-3.
ACCESSION   CP119476
VERSION     CP119476.1
DBLINK      BioProject: PRJNA242847
            BioSample: SAMN33394022
KEYWORDS    .
SOURCE      Salmonella enterica subsp. enterica serovar Newport
  ORGANISM  Salmonella enterica subsp. enterica serovar Newport
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2262)
  AUTHORS   Ge,B.
  TITLE     Genomic Analysis of Azithromycin-Resistant Salmonella from Food
            Animals and Retail Meats, 2015-2021, United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2262)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-MAR-2023) CVM/OAS, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 24-SEP-2021
            Assembly Method                   :: HGAP v. 4
            Assembly Name                     :: Microbial assembly
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 352x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 03/08/2023 11:48:33
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.4
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,836
            CDSs (total)                      :: 4,716
            Genes (coding)                    :: 4,592
            CDSs (with protein)               :: 4,592
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 51 of 124
            Pseudo Genes (incomplete)         :: 87 of 124
            Pseudo Genes (internal stop)      :: 21 of 124
            Pseudo Genes (multiple problems)  :: 31 of 124
            Pseudo Genes (short protein)      :: 1 of 124
            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..2262
                     /organism="Salmonella enterica subsp. enterica serovar
                     Newport"
                     /mol_type="genomic DNA"
                     /strain="CVM 46267"
                     /serovar="Newport"
                     /isolation_source="comminuted beef"
                     /sub_species="enterica"
                     /db_xref="taxon:108619"
                     /plasmid="pFSIS12033266-3"
                     /geo_loc_name="USA:FL"
                     /collection_date="2020"
                     /collected_by="FSIS"
     gene            1049..2038
                     /locus_tag="P1A08_24180"
     CDS             1049..2038
                     /locus_tag="P1A08_24180"
                     /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="WEM84305.1"
                     /translation="MKNPDLQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKGG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          42..123
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="96.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(455..542)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.506"
                     /coverage="96.0"
                     /evalue="1.21e-31"
     Typing          2041..2122
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="96.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(1765..1956)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.964"
                     /coverage="100.0"
                     /evalue="6.14e-93"
ORIGIN
        1 cgtcgctcac cgacgaaaga taaaactgaa tcaggctagc ggggtgtcgg ggtgcacccc
       61 tgaccagatg gcaattgtga tagcgtcgcg tgcgacggta ttacaattgc acatcctgtc
      121 ccgaaaattc ccgccgtttc tcggtttttt gagcgtcgca gaccgcacga caaacgaacc
      181 taaggtgagt ttgtataagt gcgcacttcg tgagttttct gtactgccag tttgtcgatt
      241 gcgcggaacg gctgcgtcac gaaaacggca aaatgatttg ctgtccggtc gccgaaattt
      301 ttgcgtagct gtggtggctg cggttccaaa aatcatccgc gcgttaagtg cggatgcgca
      361 cttagacgtt tctctccttc gtcgggaaac tgtgcgctcc tgcggagggg ttaacggcgc
      421 agaactgccg atgctctgcc agcgttctgg cgaaaaaatc gggacaggat gtgcaattgt
      481 aataccgtcg cacgcgacgc tatcacaatt gccatctggt cagggctgcg ccccgacacc
      541 ccgccaacgc ctcacggccc gcgaaaaaat tccgcgtacc gctcaccgtt cccgaactcg
      601 tcaaacagaa aatcgcgggg ccccgcgcct ctggcgtggg ttccgatttt gtgattgacg
      661 acggcacggg gaaaacactg gggatggtgg ttggtgtcac ggagtgaggc caaccacctg
      721 caagacggtt ttttgttgct gaaaatccag ctcaaaattc aagcaaatct cgcgcgcgat
      781 ccttgtattt atacttaagg gataactcta ggattcaaat tcgcctccag cccttgtgcc
      841 gcaaggcctg aggggggatt tgtcggaaaa tggttttgga gttattctgt cgggagtggt
      901 cgcattaaaa gcgacccccg caacgagggc aatcgttcgg gggtgtgacc acctgtagga
      961 attcgaattg gtgatacgac taacacaaca ggtgatatgg caatgataac acgtcagatg
     1021 agccatcgcc cactatcggg tggtgcgcat gaaaaaccct gatctccaga acctcacgga
     1081 ctattccccc tcagatgcgc cctgggacgc tcacagaagc gtttctgatg acgtgggagg
     1141 gatttacctg cttgcagccg aatatgagcg ctacggggcg cgtatggccc tctgtggtgg
     1201 tttactgcgt ttcgggtggt ctaccctcaa ggaaaccgga gaaacgcgtc tgaggctgcg
     1261 tgaggcgcat ttctgccgtg tccggcattg tcctgtctgc cagtggaggc gctccctgat
     1321 gtggcaagcc cgtttctacc agtccctgcc gcgtatcgtg gcggattatc ccgatgcccg
     1381 ctggatgttc ctgactctga ccgtgcgcaa ctgtgcgatc ggggagctgg gcgagatgct
     1441 gaaccggatg aatgcagctt ttcagcgcat gaaggttcgc aaggagttcc ggcctgtgca
     1501 gggctggata cgtaccacgg aagtcacccg cgggagcgac ggcagcgcac acccgcactt
     1561 ccacaccctg atgatggtgc cgcctggcat gctaaatggg aaaagttacg tcaggcatga
     1621 acgctgggtt gaactctggc gggagtgtct gcgggtcgat tatgacccga atgttgatgt
     1681 ccgggcagtg aaacctcgta agccgaaggg cggcgaatcg ctggcctgcg cgaccgccga
     1741 actggtgcgc ggtgcggtgg ccgaaaccct gaaatattcc acgaagccgg ctgacatggt
     1801 ggccgatcct gaatggttcc tcgaactgac ccgccagacg cacaagcgcc gctttgtggc
     1861 gaccggcggc gcactcaaag acgtgctgaa actcgatcag gaaactgacg ccgacatggt
     1921 gatcggtgat gatatttccg agggcgacga tgacggttca cgaatcgcgt tcgagtggaa
     1981 aaccgaggtc agaaagtacc gtcgctcacc gacgaaagat aaaactgaat caggctagcg
     2041 gggtgtcggg gtgcacccct gaccagatgg caattgtgat agcgtcgcgt gcgacggtat
     2101 tacaattgca catcctgtcc cgaaaattcc cgccgtttct cggttttttg agcgtcgcag
     2161 accgcacgac aaacgaacct aaggtgagtt tgtataagtg cgcacttcgt gagttttctg
     2221 tactgccagt ttgtcgattg cgcggaacgg ctgcgtcacg aa
//
