LOCUS       NZ_CP098729             3011 bp    DNA     circular CON 26-JUN-2023
DEFINITION  Staphylococcus aureus strain SauR3 plasmid pSauR3-2, complete
            sequence.
ACCESSION   NZ_CP098729
VERSION     NZ_CP098729.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21591357
            Assembly: GCF_020177155.3
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3011)
  AUTHORS   Chew,C.H., Yeo,C.C., Al-Trad,E.I. and Che Hamzah,A.M.
  TITLE     Staphylococcus aureus SauR3 strain genome sequence
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3011)
  AUTHORS   Chew,C.H., Yeo,C.C., Al-Trad,E.I. and Che Hamzah,A.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JUN-2022) Faculty of Medicine, University Sultan
            Zainal Abidin, Jalan Sultan Mahmud, Kuala Terengganu 20400, Malaysia
REFERENCE   3  (bases 1 to 3011)
  AUTHORS   Al-Trad,E.I., Che Hamzah,A.M., Chew,C.H. and Yeo,C.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-MAR-2022) Faculty of Medicine, University Sultan
            Zainal Abidin, Jalan Sultan Mahmud, Kuala Terengganu 20400, Malaysia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8.
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30.0x
            Sequencing Technology             :: Illumina hiseq and MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/26/2023 02:07:23
            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)                     :: 2,808
            CDSs (total)                      :: 2,726
            Genes (coding)                    :: 2,646
            CDSs (with protein)               :: 2,646
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 80
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 80
            Pseudo Genes (frameshifted)       :: 45 of 80
            Pseudo Genes (incomplete)         :: 32 of 80
            Pseudo Genes (internal stop)      :: 19 of 80
            Pseudo Genes (multiple problems)  :: 15 of 80
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP098729.1.
            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..3011
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="SauR3"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="pSauR3-2"
                     /geo_loc_name="Malaysia"
                     /lat_lon="5.325464 N 103.151674 E"
                     /collection_date="2016"
                     /collected_by="UniSZA"
     gene            complement(join(2964..3011,1..534))
                     /locus_tag="LC189_RS13995"
                     /old_locus_tag="LC189_013995"
     CDS             complement(join(2964..3011,1..534))
                     /locus_tag="LC189_RS13995"
                     /old_locus_tag="LC189_013995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000991701.1"
                     /translation="MNAIQKSVSLRKVLVISLSFLTILSMVLNFNFKEAQAQNKNNIAD
                     KNIETLNEKEIEKELDYIYGKIIVLDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKNSSISPRAVGGNYKNSNDCFYSEVLNSYGELLTGNIIAAVFDDVKAKNIKSAAKKL
                     ARIGIKGNLAGIAATMVSKDVQCTLKYGWF"
                     /name="hypothetical protein"
     gene            986..1981
                     /locus_tag="LC189_RS14000"
                     /old_locus_tag="LC189_014000"
     CDS             986..1981
                     /locus_tag="LC189_RS14000"
                     /old_locus_tag="LC189_014000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001199895.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAYNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQKALQVDYRPVANIKAI
                     KPNQKGDKDIESAIKETSKYSVKSSDFLTDNDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKITDEEAKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     Typing          2052..2216
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.398"
                     /coverage="100.0"
                     /evalue="1.13e-79"
     Typing          987..1981
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agtagctgca attccagcta aatttccttt tatgccaatt ctggctaatt tttttgctgc
       61 actctttatg tttttggctt ttacatcatc aaaaactgct gcgattatat taccggttaa
      121 aagttctcca tatgagttta aaacttcaga atagaaacag tcattactat ttttgtagtt
      181 tccaccaact gctctaggtg atattgagct atttttcttt ttattctcta tgtcgttctt
      241 tagtttttgg aaaccttcag gaacatatcc atatctagat ttggcatttt ctagattaac
      301 atctttagcg gttccgtctt tatctaaaac aataattttg ccatatatgt agtctagttc
      361 tttttcgatt tctttttcgt ttaaagtttc aatgttttta tctgcgatgt tgtttttgtt
      421 ttgggcttga gcttctttaa aattaaaatt caagaccatt gaaagtatag ttaaaaaact
      481 taaagatatt actaaaactt ttcttagtga tacacttttt tgaattgcat tcattataaa
      541 tgcccccttg ttttgttatt taaatgaatc caatataata ttaacatata aaaacaaagg
      601 agtttaatat gaataagttt atttattttt taattgtttt attgtccgta tttttaatat
      661 ttaattttgt taattcgatt ttatttaata atccttttga ctttttagaa agctttattt
      721 attcgttggt tttcacattg atttatttag gtttagaggg ctataaagag aaaaagaaat
      781 agattgtttt tgaaacgagt tgaaaacgag tttcttcttg tcttgatact atatagaaat
      841 aactcgattt tatatatata gctgtaactg ttgatattac agcgtttaaa cgtgtttttg
      901 tgcgtgaaag gaaaatttga caataaaaaa ccccagttat attattaagg tgtcgaatct
      961 taaataatac tgggggtctt tttatatgca atataatact actagaagta taaccgaaaa
     1021 tcaagataat aaaacgttaa aagatatgac gaaaagtggg aaacaacgcc catggagaga
     1081 aaagaaaata gataatgtaa gctatgcaga tatacttgaa attttaaaaa taaaaaaggc
     1141 ttataacgta aaacaatgtg gtaacgtctt agaattcaag ccgaccgatg aaggttattt
     1201 gaaattacat aagacgtggt tttgtaaatc aaagctatgt ccagtttgta attggaggcg
     1261 tgctatgaaa aatagttatc aagctcaaaa agtgattgaa gaagtaatta aggaaaagcc
     1321 aaaagcacgt tggttgtttt taacactttc aaccaaaaat gcgatagatg gagatacttt
     1381 agaacaaagt ttgaagcatc taactaaagc atttgatagg ttgagtagat ataaaaaggt
     1441 taaacaaaat cttgttggat ttatgcgttc aacagaagtt accgttaata aaaatgatgg
     1501 tagttataat cagcatatgc acgttttgtt atgtgttgaa aatgcatatt ttagaaaaaa
     1561 agagaattat ataactcaag aagaatgggt taatttatgg caaaaagcat tacaagttga
     1621 ttatcgacct gttgcaaata ttaaagcaat taaacctaat caaaaaggcg ataaagatat
     1681 tgaatcggca atcaaagaga catcaaaata ttcggttaag tcatctgatt ttttaactga
     1741 caatgacgaa aaaaatcaag aaattgtaag tgatttagaa aaaggtttat atcgaaaacg
     1801 tatgttaagt tatggtggat tgcttaaaca aaagcataaa attttaaact tagacgatgc
     1861 tgaagatggt aatttaatta atacaagtga tgaagataaa ataacagatg aagaagcaaa
     1921 agcacattca attacggcaa tttggaattt tgaaaaacaa aattattatt taagacatta
     1981 gtgatgactg atgtcttttt tattgatttt ttgtaaaaaa gtactgtctt atttttgtga
     2041 caaatgctgt atgtagtgtc acaaaactgt gacaaacgca atatattgtg tcacaaaagt
     2101 gtgacactac agctttttat gatatcactt taaaattact taaaaccctt ggaatgtctg
     2161 gctttgccag acctatcatt tttgaatgat agcaaattct ccttatgctc ttacggagtt
     2221 cttagagaaa aattaaaaat tctcgatttt tgataaaaag cgccctgcag gaatttagaa
     2281 aaacatgggg gaagttttaa aggattttat gctaattttt aatttgcatg taaatgggca
     2341 gtgtccgaaa aatcgacact gggtttgatc gaatttttga ttataaaaaa tttttgatta
     2401 taaaatcaga atatatttat ttggctcata tttgcgtttt aagaaacaaa taagataata
     2461 caggtataaa actatatatt tttaaagttc gttctaaata cccccttaaa atgcaaaata
     2521 agtatattcg attattacac gtaaattttg gttttagctc gacgcatttt taagtatgta
     2581 aatgcgcctc ttggataacg aaaaataaaa aatcttaatt aaacagagtt taactaagat
     2641 agtcacgaat tttattaggt ttaaaaatta tgattacttc agatgtttag aattaaggtg
     2701 ttgattatag tgtgaatgaa agcaagggat aataattagt aaatcagtgc acaattaatg
     2761 ttttatttaa gggatagtta cacgcataat caaacatgca tttatgccga gaaaatttat
     2821 tgatgttgag aagaaccctt aactaaactt gaagacgaat gtcggcatag cgtgagctat
     2881 taagccgacg attcgacaag tttagggatt gttaagggtt ccgaggctca acgtcaataa
     2941 agcaattgga ataaattata tatttagaac catccgtatt tcagagtaca ttgtacatcc
     3001 tttgaaacca t
//
