LOCUS       NZ_CP039859             2883 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain
            PNCS014876 plasmid p15-0756.3, complete sequence.
ACCESSION   NZ_CP039859
VERSION     NZ_CP039859.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11333168
            Assembly: GCF_005160385.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:-
  ORGANISM  Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:-
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2883)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K., Robertson,J.
            and Nash,J.H.E.
  TITLE     Complete genome sequences of Canadian Typhimurium and I
            1,4,[5],12:i:-
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2883)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K., Robertson,J.
            and Nash,J.H.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-APR-2019) Public Health Agency of Canada, National
            Microbiology Laboratory at Guelph, 110 Stone Road West, Guelph,
            Ontario N1G3W4, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: APR-2019
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 13:27:59
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,148
            CDSs (total)                      :: 5,025
            Genes (coding)                    :: 4,899
            CDSs (with protein)               :: 4,899
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 42 of 126
            Pseudo Genes (incomplete)         :: 97 of 126
            Pseudo Genes (internal stop)      :: 19 of 126
            Pseudo Genes (multiple problems)  :: 29 of 126
            Pseudo Genes (short protein)      :: 1 of 126
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039859.1.
            Bacteria and source DNA available from 15-0756.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..2883
                     /organism="Salmonella enterica subsp. enterica serovar
                     1,4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="PNCS014876"
                     /serovar="1,4,[5],12:i:-"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:2583588"
                     /plasmid="p15-0756.3"
                     /geo_loc_name="Canada: SK"
                     /collection_date="2015-02-03"
                     /collected_by="Roy Romanow Provincial Laboratory"
     gene            1..309
                     /locus_tag="E5O15_RS26260"
                     /old_locus_tag="E5O15_25990"
     CDS             1..309
                     /locus_tag="E5O15_RS26260"
                     /old_locus_tag="E5O15_25990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012564913.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_045351245.1"
                     /translation="MTDKLKGTASVLNQTKTYEELVQKHSPEVANGLLANAINNALPNA
                     GITSNDVAGFSKVTTALRTGEVDLAKTAEEANADAEAVSANILAGLTAKQKSTDEIK"
                     /name="hypothetical protein"
     gene            complement(413..1048)
                     /locus_tag="E5O15_RS25995"
                     /old_locus_tag="E5O15_25995"
     CDS             complement(413..1048)
                     /locus_tag="E5O15_RS25995"
                     /old_locus_tag="E5O15_25995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016236519.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_045351244.1"
                     /translation="MNDIFSLIESSRKIKKESIASTVRMPESLHTFIETLACDLELSKQ
                     EIMLKLLEQGARSAQEALAEIEKKELVELGAVEQLEPQTAAGFHILNTNKAHSDEDSEW
                     MLGKGIAAAFYDPWKWNINRIKPNEVVFLYENGKGIVAYGRGTGEVKIRDYHGDKDECH
                     YQELEGFKILENPLSAAQIKKILERNVVFLRTMSAMPDGQKVLNLIEG"
                     /name="hypothetical protein"
     gene            complement(1385..1621)
                     /locus_tag="E5O15_RS26000"
                     /old_locus_tag="E5O15_26000"
     CDS             complement(1385..1621)
                     /locus_tag="E5O15_RS26000"
                     /old_locus_tag="E5O15_26000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230891.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016230891.1"
                     /translation="MTRLTNLTPAEKKFIDDAIAAAERAAGKKLNQPNRHIVLNRARAQ
                     IESQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     gene            2460..2573
                     /locus_tag="E5O15_RS26005"
                     /old_locus_tag="E5O15_26005"
     CDS             2460..2573
                     /locus_tag="E5O15_RS26005"
                     /old_locus_tag="E5O15_26005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058651821.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPLAVATGN"
                     /name="hypothetical protein"
     Typing          2080..2569
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.112"
                     /coverage="81.0"
                     /evalue="0.0"
ORIGIN
        1 atgacagaca aactcaaagg aacagctagc gttcttaatc aaaccaaaac ttatgaggaa
       61 ttggttcaga agcattcacc tgaagtagct aacggcttgc tggcaaatgc tatcaataat
      121 gctttgccta acgcaggaat aacttcgaat gacgtcgctg gattcagcaa agtgacgacg
      181 gccttgcgta caggagaagt tgatctagca aaaacagccg aagaagccaa tgccgatgcg
      241 gaagccgttt cagcaaatat tcttgctggc ctgacagcaa aacaaaaaag tacagatgaa
      301 ataaaataat ttcccgcagg tacaaaaaag cccgaactag acgggccaag gtttcgtatg
      361 taattactta taaaaaaatt ttaaccgcac tcaaccccat caagtgctcg gcttaacctt
      421 cgataaggtt cagcaccttt tgaccatctg gcatagccga cattgttctc aaaaacacaa
      481 cattccgctc caatatcttc ttaatttgag cagccgatag cggattttca agaattttaa
      541 acccttccag ctcttggtag tggcattcgt ctttatcgcc atgataatcg cgaattttaa
      601 cctcaccagt acccctacca taggcaacta tgcctttacc gttttcatac agaaacacta
      661 cttcattggg cttgattcga ttgatgttcc atttccatgg atcataaaaa gcagcagcga
      721 ttcctttgcc aagcatccat tcagagtctt catcgctatg agctttgttt gtattcaaaa
      781 tatggaagcc agcggctgtc tgcggctcga gttgttctac agcgcctaac tcaaccaact
      841 ccttcttttc aatctcagct aacgcctctt gagcactcct ggctccttgt tcaaggagtt
      901 taagcatgat ctcttgcttt gaaagttcga gatcgcaggc cagcgtttcg ataaacgtat
      961 gcaacgactc gggcattcgc actgtggaag ctatcgattc ttttttaatt tttctggagc
     1021 tttcgattaa agaaaaaatg tcattcattt tatgaacctt aaattgggtt ggttatagaa
     1081 gcatatagcg aatcaaaaaa cgatgcaata attgaatcaa aatagattct aactccaggt
     1141 gatagatgat ggcgtatgca cgaatagtca ttacgatgtg tatttaccat aacatccgtt
     1201 atcagcaccc cctgacaggc cctcagcgca attctggcgc atcagagccg tttccggcac
     1261 atttcctcac ccgcatcccg gaaaaacgcc cctgatgatt tctgcgcgac tgcatggcta
     1321 tgcacgcggg tgaatcgcag gtgatttcgc agcgtcagca ccactaaacc gccaaaatcc
     1381 gcaatcagcg gcgcggcgcg cgcggacgtg accaggcaaa atcggactgc tgccgctcat
     1441 cctcacgtaa tgcacgctgg cggtcggcgt aacgctgcga ctcaatctgc gcacgcgctc
     1501 tgttcaggac gatgtgccgg ttaggctgat tgagcttctt cccggccgca cgttcggcag
     1561 cggctatagc gtcgtcgata aactttttct cagcgggggt caggtttgtc agtctcgtca
     1621 tgtttatctc cgtatgagaa tagtccctgc agtctgccag acacagtagg aacgatgaag
     1681 cgtaagcgac ggtgaaaggc agtcagaaac ggtgaacggg agcggatttt aatccggtgc
     1741 cgtgaggcgt tggacaagcc gcaggcgcgt cagtggattt agcgggtttc ggggcgcagc
     1801 cctgaaccag tcacgtagcg ctagcggagt gtatactggc taaacttcag agatgccaag
     1861 gaagggacag gatatgtttt gtagcaccgc caccacggtg gcgatactcc aaaacgcctg
     1921 gtcagggcac agccccgaca ccccagagcc gactgtaggt cactgggcga acgcggcgga
     1981 atgatgtcgg atgacgtcat tttgcggcgt ttgccctatc ctgcatcgta ttaaaaaatg
     2041 cagctatggc gcgtacggtg ccaaagataa gcccggagat attccgcttc ctcgctcact
     2101 gactcgctcc gctcggtcgt tcggctgcgg cgagcggtac cggcttactg gcggggcgga
     2161 aatttcctgg catcttccag gaagaagctt aacagggaag caagaaggcc acggcaaagc
     2221 cgtttttcca taggctccgc ccccctgaca agcatcacga aatctgacgc tcaaatcagt
     2281 ggtggcgaaa cccgacagga cttaaagata ccaggcgttt ccccctggtg gctccctcgt
     2341 gcgctctcct gttcctgcct ttcggtttac cggtgtcatt ccgctgttat ggccgcgttt
     2401 atctcattcc acgcctgaca ctcagttccg ggaaggcagt tcgctccaag ctggactgta
     2461 tgcacgaacc ccccgttcag tccgactacc acgcccgttc cggtaactat caacttgagt
     2521 ccaacccgga aagacacgac aaatcgccat tggcggtagc cactggtaac tgatttagag
     2581 gaggagagtc ttgaagttcc tggtgcgatg cagctacact gaaaggacag ttttggtgac
     2641 tgcgctcctc caagccagtt accttcggaa gaaagagttg gtagctcttg attccggcaa
     2701 acgaaccacc gttggtagcg gtggtttttt tgtttacagg gaatgagatt acgacgagag
     2761 taaaaggatc acaagaagat ccggctgttt agcagtgatt tggcttcagt atgagtgccc
     2821 gcctaacgcg agtcttgtac ataaaatttt ctactcctga ctcatcacag actagaggtt
     2881 tac
//
