LOCUS       NZ_CP100743             2119 bp    DNA     circular CON 23-JUL-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            R18.0292 plasmid pR18.0292_2.1k, complete sequence.
ACCESSION   NZ_CP100743
VERSION     NZ_CP100743.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21365150
            Assembly: GCF_024266225.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2119)
  AUTHORS   Chiou,C.S., Chen,B.H., Wang,Y.W. and Teng,R.H.
  TITLE     28 Salmonella enterica strains that have azithromycin resistance
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2119)
  AUTHORS   Chiou,C.S., Chen,B.H., Wang,Y.W. and Teng,R.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-JUL-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 :: flye v. 2.9; trycycler v. 0.5.3; medaka v. 1.6.0;
            homopolish v. 0.3.3; polca v. 4.0.5; polypolish v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 329x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/23/2023 02:08:24
            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)                     :: 4,994
            CDSs (total)                      :: 4,870
            Genes (coding)                    :: 4,743
            CDSs (with protein)               :: 4,743
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 127
            CDSs (without protein)            :: 127
            Pseudo Genes (ambiguous residues) :: 0 of 127
            Pseudo Genes (frameshifted)       :: 38 of 127
            Pseudo Genes (incomplete)         :: 95 of 127
            Pseudo Genes (internal stop)      :: 20 of 127
            Pseudo Genes (multiple problems)  :: 25 of 127
            Pseudo Genes (short protein)      :: 1 of 127
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100743.1.
            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..2119
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /strain="R18.0292"
                     /serovar="Typhimurium"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pR18.0292_2.1k"
                     /geo_loc_name="Taiwan"
                     /collection_date="2018"
                     /collected_by="Centers for Disease Control, Taiwan"
     gene            complement(102..425)
                     /gene="yecR"
                     /locus_tag="NL736_RS24940"
                     /old_locus_tag="NL736_24940"
     CDS             complement(102..425)
                     /gene="yecR"
                     /locus_tag="NL736_RS24940"
                     /old_locus_tag="NL736_24940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000716773.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YecR family lipoprotein"
                     /protein_id="WP_016245705.1"
                     /translation="MKKLVAIGLGVLILSGCATQKQMTPMGGSKADGTVKMGYTFGMFE
                     KPVVDLNSAKDLAGQKCKTWGYTGAEAFGGQTSTCAQVGAYGCEMTNVSIEYQCTGGKA
                     SEN"
                     /name="yecR"
     gene            1272..1421
                     /locus_tag="NL736_RS24945"
                     /old_locus_tag="NL736_24945"
     CDS             1272..1421
                     /locus_tag="NL736_RS24945"
                     /old_locus_tag="NL736_24945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_162846302.1"
                     /translation="MPSEYDEQRGSTDTQLPGEYDLFDLMAKVTEEILHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          1064..1279
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.284"
                     /coverage="100.0"
                     /evalue="7.22e-78"
ORIGIN
        1 ttttcgggtg gtttgttgcc tgttttaccg gtttcccgtc agaaacgccc tcagagcctc
       61 tcaggcggtg cacgcaaggg atgttatggt aaatgttgaa cttagttttc tgaagctttc
      121 ccaccggtgc attggtactc gattgaaacg ttggtcatct cacaaccata agccccgacc
      181 tgtgcgcagg tggatgtttg gccgccaaat gcctcagccc cagtgtatcc ccatgtttta
      241 catttttgtc cagccagatc tttagctgag ttcagatcaa caacgggttt ttcaaacatc
      301 ccaaaggtgt aacccatttt cactgtacca tcagctttac tcccccccat cggggtcatt
      361 tgtttttgcg ttgcgcagcc tgaaagaatt aaaacgccta aaccgatcgc tactagtttt
      421 ttcatttttt attttccgga tgattgttcg gaattatctt aacgggaagt ttacacaagg
      481 caacaccctc tgtaatcctc tgattatttg aggtatccca taaaaaaatc aaagaaagcc
      541 taatgccccc gtggtgggta tataaaaata cggggagcgg agcgaccttc gtctagctct
      601 tgttttgttt ttcttgccgc gcaactggct tgattgtgtg ggtgttgtgt ccgacgtctc
      661 tcacatcacc gcgtactgct gcctttttcg ctcattttat caggtgcaag ttatcgtact
      721 gcgagacggg gtagagccta actctttcgc ggttaagtta cgtttccacc aattgcctgt
      781 ttatcctgcc ggagtccggg gcgtagacct gagcgtctta ggtgcagatg tggatttaat
      841 gtcgttgaat ggtattaagc tggtagtgac aaggctagcc agccctgcta ggatttgatt
      901 tctgacgtct attcctggca ggcatctgcg aagaattaga gtaccgaagc cctgtgattc
      961 tgtcacgggg cttttgtaca tttagcgccc gagaatcaaa aacatccctt cagaacttat
     1021 gtaacgcccg ccgcagtctc acggcaggag cgcagcgacc gagtgagcga ggaggcgaca
     1081 tttcatcctt acctgcatgt tgcacttacg ccccgcagct acatttttcc cctgccacat
     1141 gaagcacttc cctgaattcc cacttcgctt taccatatta agccagtata cactccgcta
     1201 gcgctacgtg actggttcag ggctgcgccc cgaaacccgc taacaacctc tctgctactg
     1261 gatatcaccc catgccatct gaatatgatg aacaacgggg ttcgactgat acgcagcttc
     1321 ccggcgaata tgaccttttt gatttaatgg cgaaggttac tgaagagatc ctgcatgccc
     1381 ctgtggattc tgggccgcct gtcggccggg aagcgttata gctttttcgc ttgcccgcgt
     1441 acgtggtaat acgccggtat taccttttat ttctttattt tcatgtaatt acagtgggtt
     1501 tttaatacct gggtattact cgtgaaaacg aaacattact tttttttctt ttaattcatg
     1561 cagttgcgat gaaaatcgcg gctgcgttag gtgtatgacc attttgaggt tgaaaaataa
     1621 tcaaccatgg cgggtgattt acgcaggtta aggggagatc gtgacaaaaa aaagcgttcc
     1681 tcactgtatc gttcatgcct gcatgaacgg gttattcttc ctgactacag aattacatcg
     1741 ctccttcagt tcatacatca cttttacaac acttttacaa cactccttcg gcctgtacat
     1801 cacttttaca acacttttgc atcactttta catcatttat acatcacttt tacatcattc
     1861 cttcagctca tacgtcactt tcatcctctg tgccatttgt acatcacccc cttcctgaac
     1921 gtgctgacag cgggttttcc ggctgcgccg gcaacgcttc acggccacgc aataaattgc
     1981 gtccccgttc accgttttcg gatgggaaga acgccggaaa caggacttcc cctggctgaa
     2041 tggtgtgaat ttccgcgcta tgcacttgcg cgcatactca tgcatgccgt aaaaacagag
     2101 cctgcgcgtt tctggcggg
//
