LOCUS       NZ_CP039601             3751 bp    DNA     circular CON 29-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain
            PNCS014867 plasmid p12-6334.2, complete sequence.
ACCESSION   NZ_CP039601
VERSION     NZ_CP039601.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11333164
            Assembly: GCF_004919425.1
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 3751)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K. 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  JOURNAL   Unpublished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 3751)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K. and Nash,J.H.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-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 Method                   :: unicycler v. 0.4.7; canu v. 1.8
            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                   :: 07/29/2023 04:10:43
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,854
            CDSs (total)                      :: 4,731
            Genes (coding)                    :: 4,624
            CDSs (with protein)               :: 4,624
            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)              :: 107
            CDSs (without protein)            :: 107
            Pseudo Genes (ambiguous residues) :: 0 of 107
            Pseudo Genes (frameshifted)       :: 32 of 107
            Pseudo Genes (incomplete)         :: 86 of 107
            Pseudo Genes (internal stop)      :: 17 of 107
            Pseudo Genes (multiple problems)  :: 27 of 107
            Pseudo Genes (short protein)      :: 1 of 107
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP039601.1.
            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..3751
                     /organism="Salmonella enterica subsp. enterica serovar
                     1,4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="PNCS014867"
                     /serovar="1,4,[5],12:i:-"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:2583588"
                     /plasmid="p12-6334.2"
                     /geo_loc_name="Canada: ON"
                     /collection_date="2012-09-07"
                     /collected_by="Public Health Ontario Laboratories"
     gene            121..519
                     /locus_tag="E5O11_RS24485"
                     /old_locus_tag="E5O11_24485"
     CDS             121..519
                     /locus_tag="E5O11_RS24485"
                     /old_locus_tag="E5O11_24485"
                     /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="WP_080078285.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQMIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(780..1799)
                     /locus_tag="E5O11_RS24490"
                     /old_locus_tag="E5O11_24490"
     CDS             complement(780..1799)
                     /locus_tag="E5O11_RS24490"
                     /old_locus_tag="E5O11_24490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001271364.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(2233..2766)
                     /locus_tag="E5O11_RS24500"
                     /old_locus_tag="E5O11_24500"
     CDS             complement(2233..2766)
                     /locus_tag="E5O11_RS24500"
                     /old_locus_tag="E5O11_24500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168772.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(2769..3695)
                     /locus_tag="E5O11_RS24505"
                     /old_locus_tag="E5O11_24505"
     CDS             complement(2769..3695)
                     /locus_tag="E5O11_RS24505"
                     /old_locus_tag="E5O11_24505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_014342223.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGYDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     Typing          complement(1025..1799)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(2773..3695)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtgcgcttcc ttctaatttt acgaattagc acggaagata ccccctgcac ccgccgaccg
       61 caagcgatat actgcacgac cacaacacac cgcaaaaaaa caccagggag caccacgaac
      121 atgcgcatca gcaacatcga atggctgaag aaacggatcg gattcatcag gaagctcgga
      181 gaacagaccg cacgacagag acagatgatt gacctgctcg acaacgaagc aggactcaca
      241 gaacaggaac gcaaactcct ccacgtactg gcaacagcgg aaaaaaacga cttacaggca
      301 caggagagcg aacgaaaaca ggcggtccaa aaacgaatcg agggaaaaaa acaacgacga
      361 gaacgcaatc accgactctt tctcgcggct gggctactga tcgaagcagg actggtagac
      421 acaaaaacag gcgagctatg ctataaaaaa gacaggatat tacaggcact taaggaaatt
      481 aagtacgatc tggagacatc cccaaaccca gacgcgtaag tgcctccatc cgtgttccgg
      541 ttccctggtg cttcctcgct cattcgctcg ctacgctcgg tcatgagact gcggcgagca
      601 cgaccacctc aatcatgcgg taagccgcac cattgctggg ctgagaggag aaaaccgccg
      661 gaaagcccgc tgctcaaaaa gacgccgaaa ggcgctgtta tctgatatag gcttgttcat
      721 gtccgcgaat ttaacccccc attaacaaaa aacggggggt agtgttactt ctttgttaac
      781 taacatttaa ttatttgttt cttggttagc cattctccag aattatccat ccagcgtcga
      841 atagtccggc tgctaacacc aaccgccact gcaatatctt ccgttgacgc tcccaagata
      901 tacatatcaa gcgccctacg acgtttgtcg tcgttagcag tccaccgaac agcggcgctt
      961 tttttccctt tgtccgactg attttctgac gaattggcct tcccgccctt gcgaccgcgt
     1021 gctgcctgaa tttctggcgt gtgcgtatca gccacatact gtgcgaaagt ttccggcgtg
     1081 aagttcctgt gcgtgtattt cgcaatgctc ttgccaatag cccgacattc agccagtgaa
     1141 agcggaacgg gaagcgatgc attgtacatt tcgacacgct ggatcaccgc ttcaagccac
     1201 tgtgagaacg ctggccagcc ctgacgaatc gccctgtaag cccatttgcg cgtcatttcg
     1261 aacaggtggc agtttcgccc catcccgtaa tgtttatcga tgctacgacg ctctgaggcg
     1321 ctcaaatcga gataatctgc cagttcatcg agggtatagg cgtcctcgcg ccactccatc
     1381 acctgccatt ccaggtggaa cggatttttg caaatcaggc cgctgtagtt cacatcagca
     1441 caaagtttct cacacagcga acgttcaacc gctgcggcat atttcagcgc cttaaccgag
     1501 gcatcaggcg cggttctcac ggcgatgttg agtgcgtaga gcaggtgagc gtgtccgttc
     1561 acaggatttt taacggtgat gttcggcgcg ggggcgttcc ggtcgctcca gtcaatcgca
     1621 gccccctcgc ggtcaacgtc aaaaaccagc cagaactgcg catgaggctg gttctgctgg
     1681 atgtaccgcg caagaagcgc acgccctttg ccggagatgc gaaggccgaa agcgagatca
     1741 tccgtgtgat aggggcggtg gggtaaattt tcttcgaagt attgaagcgc ggcgctcatg
     1801 tgttacgatt ccttccaggt tatcgaccga cctcgcccct gtattctcgt gacaatcttg
     1861 gcggagagac acgaatttca ggggcgtttg tttttcagtc gcttacacta cccccaacaa
     1921 caaaacctgt cgagccttcc cgcaaaaccg atccatttac cataactccc gttgtacgcc
     1981 ccccttaaaa cgccctcagt cgctctctgg cgcaaaaaac gcaaaaagac aaggaaacac
     2041 caggctaaac cagaaaaatg cgtcagaatc gtttttagcg cgttgcataa ctatgcacga
     2101 aagcgatgcg cgatctgttt cgagcgttca gaagggcgaa cgggtcaaaa cagcaaactt
     2161 tctcatcaga aaacggtgaa cgggacgcgg aattttttcg cgggtcgtga ggcgttggac
     2221 aagcgaagcg cgtcagtttt tccggctctt gcccgtgaca ggtttctccg ccagtttatc
     2281 ttccagtgtc acaactttct gatacaccgc cgctgtggcg ttgtagttcc tgtcgagcat
     2341 tgttttcatt ccccatccaa gcacacagaa cataaccaga aaagccactg acaccccacc
     2401 cagccatttc cagctatacc ctttaagggt gttgtattcc tgcacgatat tgctgtgaat
     2461 tgtcgcaata tccctgttca gggcatccgc gtttgccttc atgtttgcga ctgactcttc
     2521 cagccgctga aaatcctggc tgatgcgctc acctatcagc cctgcaacat ccagcttctg
     2581 cacctcgttt ctgacttcat ccctgacctg ttttgccaca ccgtcagaaa tatcccgata
     2641 tccgcgaagt gtttcccttg ccacagccag agaatcagca acagctttct gttgctccat
     2701 tgcggtatgt tgcagatgct ccaccgataa caggagcgtg agtaattttt cttctgtgct
     2761 ggccatgttc agaatcccat agaaaatcca cgtgacggtg atttaacccg ttcaggttca
     2821 gttcggttct gtctgctcac tctgtctctc atgtcaaagc catgctcccg cgcaacatca
     2881 tgttgcagcc ttctgaccag ttcatgttgc ttaaccggag tgtccagcca ttccctgatg
     2941 tcatacccga ccgttcgcgc ctgttcaaga tggcgggaat agtccggttc agaccgtttt
     3001 tgcatgatgt catgacgctg ggcatcatca agccgtccgg cagcttcaaa acccagatgc
     3061 acttcgggac gtcgttcaat gccctgttct ttcagcgtcc ggcagtcaat gaagcccctt
     3121 tcaaagccat gctttctcat atgttcgttg tgcttcacct cccagcgttt tcgcaattcc
     3181 cgcaactgct ctttttgctg agtgagagtc aggcttccgg aatccttttt cgcacctccc
     3241 cgctcgggat acctggcgtt atagcgccgg aaatactgtt ccggtgtacg ttcaatgcca
     3301 tcattcacac gctggctcat catgatatgc gcatgaggct gttcgccgcc gtcaatgctc
     3361 gctttcggat tgtgaatggc aaaactccag gcgtgccgtt cgccagcttc ctgacgtaca
     3421 aaatcctgca ccagttcaag gcgctgttcc gctgtcagtt cacggggtaa tgcaatttca
     3481 agttcccgat aggtcgaacc gttcgcacgt tcaaactggt cagcagcctg ccagaaatgt
     3541 gagggattat ctcgcgccca ttccggcatg tttccgtgtg cggaatattc caaatcctga
     3601 cggtcgcggt atttctcttt gcgctcgatg taatcggcgt ggtttgcagc ctgccccttg
     3661 ccaccaaatt taacgctgag gtgataggtt gccacggttt cagccctccg caggagcgca
     3721 ctgtttctcg acgaaggaga gaaacatata a
//
