LOCUS       NZ_CP100675             4018 bp    DNA     circular CON 23-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Mbandaka strain R17.0904
            plasmid pR17.0904_4.0k, complete sequence.
ACCESSION   NZ_CP100675
VERSION     NZ_CP100675.1
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 4018)
  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  JOURNAL   Unpublished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 4018)
  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
            CP100675.1.
            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..4018
                     /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_4.0k"
                     /geo_loc_name="Taiwan: Chiayi County"
                     /collection_date="2017"
                     /collected_by="Centers of Disease Control, Taiwan"
                     /subtype="ST413"
     gene            146..361
                     /locus_tag="NL713_RS23965"
                     /old_locus_tag="NL713_23965"
     CDS             146..361
                     /locus_tag="NL713_RS23965"
                     /old_locus_tag="NL713_23965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_072048928.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            490..1017
                     /locus_tag="NL713_RS23970"
                     /old_locus_tag="NL713_23970"
     CDS             490..1017
                     /locus_tag="NL713_RS23970"
                     /old_locus_tag="NL713_23970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004883515.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016246513.1"
                     /translation="MKCFWACSVSVVLAMSFTVAAAENNDNVTYTKPSAGRDLYLTCKG
                     YQVKGASVINVEKPSYLEGTGEQVEFAIITPVGASDGLKVFFDSWGFSSFGLIESHVMH
                     EHWSLVHVGGRASVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCMNSDKRPSWVEKIY
                     TRTGVFRGGIED"
                     /name="hypothetical protein"
     gene            1272..1484
                     /locus_tag="NL713_RS23975"
                     /old_locus_tag="NL713_23975"
     CDS             1272..1484
                     /locus_tag="NL713_RS23975"
                     /old_locus_tag="NL713_23975"
                     /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_034169353.1"
                     /translation="MGDFERTFGAGADFDRIIDENNSEYFREDRRKTKNSKKKFSSFQD
                     ALVWAKANPGKTIIRSPDGVGFIEK"
                     /name="hypothetical protein"
     gene            2674..2997
                     /locus_tag="NL713_RS23980"
                     /old_locus_tag="NL713_23980"
     CDS             2674..2997
                     /locus_tag="NL713_RS23980"
                     /old_locus_tag="NL713_23980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_024191642.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQICLDEKPSRAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGTGHDRVQVVAVLMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3206..>3640
                     /locus_tag="NL713_RS23985"
                     /old_locus_tag="NL713_23985"
                     /pseudo=""
     CDS             3206..>3640
                     /locus_tag="NL713_RS23985"
                     /old_locus_tag="NL713_23985"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     Typing          2384..2561
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.222"
                     /coverage="83.0"
                     /evalue="4.5e-50"
     Typing          complement(1914..2434)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.564"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2..453
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="87.417"
                     /coverage="99.0"
                     /evalue="4.41e-74"
     Typing          2988..4015
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.044"
                     /coverage="88.0"
                     /evalue="0.0"
ORIGIN
        1 cacgcaggcc atgctttcag agaagaacaa cggcgtccag ctcacgacct gcggggagga
       61 gagacgccgc tgcgtgaggg tgaacccgga agcgggaaga ttcggagagg attcgagctg
      121 gatgatactg gcggggaaat agcacatgac ggaactggaa aaacagttgc tgagcgcatt
      181 agagcagcta cagcaggact actcgaaaag gctggacgag tgggagaacg ccttcgcgga
      241 atggcggacg atgtctgggc ttatgcaacg ggagaacgcg gcgctgagcg agcgcgtcac
      301 gggcttgagc aggcaggtgc agagtttgag cgatcagctg cgccgattgt cgcaaggctg
      361 aatggcatcg aggcgcaccg ggagcaggag cgcgcggcgc agcaccagaa agcgctggag
      421 ctggaacgat cgcagcggca gaaaggtttt gagcttggaa tgtagttaat caatgaaaag
      481 ggatgcgtta tgaaatgttt ctgggcttgc tcagtctcgg tggttttggc tatgtcattt
      541 acagtcgctg ctgcggagaa taacgacaac gttacatata caaaaccgtc agccgggagg
      601 gacttatatc ttacctgtaa aggttatcag gtgaaggggg catctgtaat taacgtcgag
      661 aaaccttctt accttgaagg tactggtgag caggttgaat ttgcaatcat tactcctgtt
      721 ggtgcgtctg acggactcaa ggtctttttt gattcatggg gtttttcttc atttggattg
      781 attgaaagcc atgtgatgca tgagcactgg tctttagttc atgttggggg gcgtgcttca
      841 gtcaaaggtg aaaagattga ttattcattt gtagataacc agccacagga gggggggagc
      901 tataaaccca aaacaggtgt gttcctgtac ggctgcatga actcggataa aagaccatct
      961 tgggtcgaaa agatctacac aagaacaggt gtgtttcgag ggggcataga agactaaaat
     1021 actgcttaca gcatgaaaat ccattgaaca gagtgtcagt tcatttccgt gcataactat
     1081 gcataccgta agaacttacg gggggcattt atcggcgttt ttacgtggta agaggtgctc
     1141 ttttgcggtt catggcgcag aacggtgctg aggctgtctg cggcggtgcg aacaagggat
     1201 gttatggtaa ataagagtgt cttttggata ttttaaatct gtttttttat taaatttaat
     1261 gggggcagaa aatgggggat tttgagcgta cctttggagc tggtgctgat tttgatcgga
     1321 taattgatga gaataacagc gaatattttc gagaagatcg ccgaaaaact aaaaattcaa
     1381 aaaaaaaatt ctcttctttt caagatgctt tggtttgggc gaaagctaat cctggcaaaa
     1441 cgataataag atctccagac ggtgtggggt ttattgaaaa atgaaagagt ggattcactg
     1501 taaaacaaca gtcatttttt ggacaacact gtctatatac gtactcatat gtttcacagt
     1561 gtcgtatgtt ggagtctatg ttacgtacgt tgcagggcct attttgttag ttacaggcat
     1621 tcttgcatgg cttacgaaac ctagctgtaa tccaaagtga ctgggctaga tgaactttat
     1681 ccccccataa aacccgcttt tttaaacgga tcttcttgag atcattcatg gagaatcgta
     1741 atctcttagc actgtaaacg aaaaaaccgc ccagcaaggc ggttttttcg aaggttctca
     1801 gagcagcaac tctttgaacc gaggtaactg gcttggagga gcacagtcac caaaacttgt
     1861 cctttcagtt tagccttaac cggcgcataa cttcaagact aactcctcta aatcagttac
     1921 cagtggctgc tgccagtggc gttttgtcgt gtctttccgg gttggactca agtcgatagt
     1981 taccggataa ggcgcagcgg tcggactgaa cggggggttc gtgcatacag tccagcttgg
     2041 agcgaactgc ctacccggaa ctgagtgtca ggcgtggaat tagataaacg cggccataac
     2101 agcggaatga caccggtaaa ccgaaaggca ggaacaggag agcgcacgag ggagctacca
     2161 gggggaaacg cctgggatct ttatagtcct gtcgggtttc gccaccactg atttgagcgt
     2221 cagatttcgt gatgcttgtc aggggggcgg agcctatgga aaaacggcaa cgccgcatcc
     2281 tttttccgcc ctttctgatt gatttccgct tagtctcttt atccagccat tcgtaagctg
     2341 gcaacgcccg ccgcagtctc acggcaggag cgcagcgacc gagtgagcga ggaggcgtca
     2401 tttcaccggg atctgcattt cgcacttacg ccccacagca gcattttctc cctgccacat
     2461 gaagcacttt cctgaatccc cactccgatt taccatgtta agccagtata cactccgcta
     2521 gcgctacgtg actggttcag ggctgcgccc cgaaacccgc tgaaaagtac tgccgcgccc
     2581 tgcgggcttg cccaacaccg ctccggacag gaaaaaattt cccgcccgaa ccggtgttat
     2641 ccggaggatg gtttggcaga aaagcgcaac aaaatgctca ctatgtgggt gacagaagac
     2701 gagcaccgcc gacttctgga gcgctgtgag ggtaaacaac tcgcggcctg gatgcgccag
     2761 atatgcctgg acgaaaagcc ctcgcgtgct ggcaaacttc catccatctc gccggcgctg
     2821 cttcgtcagc ttgccggcat gggtaacaac ctcaaccaga ttgcccggca ggttaacgcc
     2881 ggtggcggta ctgggcacga tcgcgtgcag gttgtcgccg tgctgatggc cattgatgcc
     2941 ggactcgagc ggctgcggca cgccgtgctg gaaaaggggg cagacgatga tcgttaagtt
     3001 tcatcccaga ggccgcggcg gtggcggcgg tccggtggat tatctgctgg ggaaagaccg
     3061 gcagcgcgac ggcgccagcg ttctgcaggg taagccggag gaagtgcggg agcttattga
     3121 cgcctcgcct tacgccaaga aatacacctc cggcgtgctg tcttttgccg aacaggattt
     3181 gccgcccggc cagcgtgaaa agctgatggc gagctttgag cgggttctga tgcccggact
     3241 cgataaagac cagtacagcg tactgtgggt tgagcaccgg gacaaagggc ggctggagct
     3301 gaacttcctg atcccgaaca cggagctgct gaccggcaga cgtctccagc cgtattacga
     3361 ccgcgccgac cgtccgcgca ttgatgcctg gcagaccata gtgaacggca gactggggct
     3421 gcacgacccg aacgcgccgg aaaaccggcg ggcgctggtt acaccgtccg cgctgccgga
     3481 agcgaagcag gaagccgccc aggcgattac gcgcggccta ctttcccttg cctcatccgg
     3541 ggagctgaaa acccgtcagg acgtcactga ggcgctggaa agtgcgggtt ttgaggtggt
     3601 gcgcaccacg aaaagcagca tcagcattgc cgaccctgac ggggggcgaa acatccgact
     3661 gaagggagcc atctatgaac agtcttttaa cgctggcgaa ggacttagag cagaaatcga
     3721 aagcgcagca gcagactacc ggcgagatgc tgaaagccgc attcagcgag cacgagaagt
     3781 ctgtcagagc ggaactgagc gaaagcgaga agagaatcag cgccgccatc ctcgaccacg
     3841 accggaagct gtcctcagcc atgagccaac gcacgaaagg gatgctgcgt atgatcagcc
     3901 agacgtggct gaccatagtc ctggtctccg cgctactgat cgcctcgagc gcgggcattc
     3961 tgtggtggca ggggcaacag atactcgaca actacacgac catccaggaa cagaagag
//
