LOCUS       NZ_CP100676             2562 bp    DNA     circular CON 23-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Mbandaka strain R17.0904
            plasmid pR17.0904_2.6k, complete sequence.
ACCESSION   NZ_CP100676
VERSION     NZ_CP100676.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29431219
            Assembly: GCF_024266165.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Mbandaka
  ORGANISM  Salmonella enterica subsp. enterica serovar Mbandaka
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2562)
  AUTHORS   Chiou,cs., Chen,bh., Wang,yw. and Teng,R.H.
  TITLE     28 Salmonella enterica strains that have azithromycin resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2562)
  AUTHORS   Chiou,cs., Chen,bh., Wang,yw. and Teng,R.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-JUN-2022) Center for Diagnostics and Vaccine
            Development, Centers for Disease Control, Taiwan, No.20, Wenxin S.
            3rd Rd., Nantun Dist., Taichung City 408, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 196x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/23/2023 02:20:20
            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)                     :: 4,803
            CDSs (total)                      :: 4,684
            Genes (coding)                    :: 4,565
            CDSs (with protein)               :: 4,565
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 119
            CDSs (without protein)            :: 119
            Pseudo Genes (ambiguous residues) :: 0 of 119
            Pseudo Genes (frameshifted)       :: 43 of 119
            Pseudo Genes (incomplete)         :: 84 of 119
            Pseudo Genes (internal stop)      :: 24 of 119
            Pseudo Genes (multiple problems)  :: 30 of 119
            Pseudo Genes (short protein)      :: 1 of 119
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100676.1.
            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..2562
                     /organism="Salmonella enterica subsp. enterica serovar
                     Mbandaka"
                     /mol_type="genomic DNA"
                     /strain="R17.0904"
                     /serovar="Mbandaka"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:192954"
                     /plasmid="pR17.0904_2.6k"
                     /geo_loc_name="Taiwan: Chiayi County"
                     /collection_date="2017"
                     /collected_by="Centers of Disease Control, Taiwan"
                     /subtype="ST413"
     gene            521..>616
                     /locus_tag="NL713_RS23990"
                     /old_locus_tag="NL713_23990"
                     /pseudo=""
     CDS             521..>616
                     /locus_tag="NL713_RS23990"
                     /old_locus_tag="NL713_23990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /name="plasmid mobilization relaxosome protein MobC"
     gene            complement(1164..1352)
                     /locus_tag="NL713_RS23995"
                     /old_locus_tag="NL713_23995"
     CDS             complement(1164..1352)
                     /locus_tag="NL713_RS23995"
                     /old_locus_tag="NL713_23995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041623.1"
                     /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="WP_024157497.1"
                     /translation="MNRQESAVLNMAKFIRAQTLLLLERIDLLDFDDEATDCEQLHEQA
                     EALYRKLSARLESDITA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1604..1921)
                     /locus_tag="NL713_RS24000"
                     /old_locus_tag="NL713_24000"
     CDS             complement(1604..1921)
                     /locus_tag="NL713_RS24000"
                     /old_locus_tag="NL713_24000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000718044.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023224510.1"
                     /translation="MKKIFILSAALIMAGCATKQYPQAANVTGPESSAMDCKAVALEIA
                     KTRSVQQEIEATGEFDGRTVLGFLGDFGIGNGMAKGEARKKAANRLNQLEALKAAKCAD
                     Q"
                     /name="hypothetical protein"
     Typing          235..408
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.143"
                     /coverage="100.0"
                     /evalue="2.63e-66"
     Typing          complement(2..311)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.22"
                     /coverage="90.0"
                     /evalue="4.6199999999999997e-94"
     Typing          complement(2097..2562)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.789"
                     /coverage="89.0"
                     /evalue="6.16e-152"
ORIGIN
        1 gccaccaggg ggaaacgcct ggtatcttta agtcctgtcg ggtttcgcca ccactgattt
       61 gagcgtcaga tttcgtgatg cttgtcaggg gggcggagcc tatggaaaaa cggcaacgcc
      121 gtggccttgc ttcttctttg ctaagtattg ccctggcatc ctctaggaaa tttccgccca
      181 gtttgtaagc ccacaccgct cgccgcagcc gaacgaccga gcgcagcgag tcagtgagcg
      241 aggaagcgga atatctcctg tctcgtatat tctgctgacg cgccggtgcc gcctttttcc
      301 tccttccaca tgaagcactt cactgacctc cgcatccgtg tcgacatatt aagccagtat
      361 acactccgct agcgctgcgt gactggttca gggctgcgcc ccgaaacccg tcaacagcct
      421 gacgcgcctg cggcttgtcc aaccccgcgc cgaccgggaa agcttttccc gcccgtcacg
      481 gcgttatcag gagactggtt tgtccgagaa acggaacaag atgctcacca tgtgggggac
      541 ggaggatgag caccggctac tgctggaacg ctgcgggggt acacagcttt ctgcatgggt
      601 gcgcccgtct gctatgtctg ttcctcctag ttttggtggg tgcttatatc tctactaaat
      661 ggcataacat gtcactacta accgcgatgc taaagcgggc tgtttttcaa agtattaccg
      721 gcccccgtgc cggttttttt tcttaccgga aggggcttcg tgtttattga tgttctgatt
      781 ttcggagggt gtactgatcg ccttgccagg cgacgcgagg aaggacatat ttacgacgag
      841 gtactttctg tactttaggg aaggtgtggc agatgagctg acccagatac atttctggcg
      901 tgtcgttagt gcattatatc ccgaggcatt taaccgtatt gattacctcc ctgattctcg
      961 taaataccgt ctctggttat cctgattttt aatctcgtca ctgcttgctt accgttccag
     1021 tctgtattgt ctgcattttt ctttcatact gagtgcctca cgacccgtaa taaattccgt
     1081 gtccgttcat ccttgagcga cgactggagg atgaagatct ctcaaaagat gatgtggatg
     1141 ccatgatgca ggcgacggaa aggctaagcc gttatgtctg attccagtcg ggcgctgagc
     1201 ttccggtaaa gcgcttcggc ctgctcatgc agctgttcgc agtctgtcgc ttcgtcatcg
     1261 aagtcgagca ggtcaattct ttccagcagg aggagtgtct gggcgcggat aaatttagcc
     1321 atgttgagaa cggcggattc ctggcggttc atgtgtgttt ttccgtgtct tgtgatgatt
     1381 ttgatgtgaa aacaggatgc cgtcattctg gtgcatagtc atgcatggcg ttaaaattta
     1441 cctagcacgt ttctggcggc ttttcgggtg gtttgttacc tgttttaccg tacagccgtc
     1501 agaaacgcgc tgaagggttc tcaggaggtg cagacaacgg atgttatggt aaatccagct
     1561 gattggcagg tataaaaaaa gccccgcagg gcttttttgt accttattga tctgcacact
     1621 ttgcagcctt cagggcttcc agctgattta gccggttagc tgcttttttg cgggcttcgc
     1681 cttttgccat gccatttcct atcccaaaat cacccaggaa acctaatacg gtgcgcccgt
     1741 caaattcgcc ggttgcctca atttcttgtt gtacactgcg cgtttttgcg atttccagag
     1801 ctaccgcttt gcaatccatt gcggaagatt ctggaccggt gacgttcgcg gcctgtggat
     1861 attgctttgt tgcgcatcct gccatgatca gcgctgccga taggatgaat atttttttca
     1921 aaattatcct tattttattt aggcatagtt aagagatacc cattttatcg gcaggaaatg
     1981 agggtttttt agttgaattt tgggaggggc aaggttccat attggtcgag gattctggag
     2041 ctgaccggca acggccagcg cggctatggg ccatgcggtg gttgagcata gaaaggatct
     2101 tcttgagttc ctttttttct acgcgtaatc tcttgctctg aaaacgaaaa aaccacctgg
     2161 gaaggtggtt tttcgaaggt taagtcagtt ggggaactgc ttaacctggt aactggcttc
     2221 agcagagcgc agataccaaa tactgtcctt ccagtgtagc cgtagttagg ccaccacttc
     2281 aagaactcta tagcaccatc tacattaact cgctctgcta atcctgttac cagtggctgc
     2341 tgccagtggc gctttgtcgt gtctttccgg gttggactca agacgatagt taccggataa
     2401 ggcgcagcag tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc
     2461 cttcccggaa ccgagtgtca ggcgtggaat gagaaaccgc ggccataaca gcggaatgac
     2521 accggtacac cgaaaggcag gaacaggaga gcgcacgagg ga
//
