LOCUS       NZ_CP042159             1686 bp    DNA     circular CON 08-OCT-2023
DEFINITION  Staphylococcus aureus strain B3-17D plasmid pSALNC1.6, complete
            sequence.
ACCESSION   NZ_CP042159
VERSION     NZ_CP042159.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12359200
            Assembly: GCF_007726565.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 1686)
  AUTHORS   Neyaz,L., Karki,A.B. and Fakhr,M.K.
  TITLE     Comparative genomics of plasmid bearing Staphylococcus aureus
            strains isolated from various retail meats
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1686)
  AUTHORS   Neyaz,L., Karki,A.B. and Fakhr,M.K.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-JUL-2019) Biological Science, The University of Tulsa,
            800 S Tucker Dr, Tulsa, OK 74135, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: CLC Genomic workbench v. 7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 242.54x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/08/2023 02:21:55
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,878
            CDSs (total)                      :: 2,798
            Genes (coding)                    :: 2,703
            CDSs (with protein)               :: 2,703
            Genes (RNA)                       :: 80
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 60
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 95
            CDSs (without protein)            :: 95
            Pseudo Genes (ambiguous residues) :: 0 of 95
            Pseudo Genes (frameshifted)       :: 49 of 95
            Pseudo Genes (incomplete)         :: 45 of 95
            Pseudo Genes (internal stop)      :: 30 of 95
            Pseudo Genes (multiple problems)  :: 26 of 95
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP042159.1.
            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..1686
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="B3-17D"
                     /isolation_source="retail chicken"
                     /db_xref="taxon:1280"
                     /plasmid="pSALNC1.6"
                     /geo_loc_name="USA: Oklahoma"
                     /lat_lon="36.1540 N 95.9928 W"
                     /collection_date="2010-06"
                     /collected_by="Lubna S. Abdalrahman"
     gene            complement(join(1670..1686,1..466))
                     /locus_tag="FP481_RS14590"
                     /old_locus_tag="FP481_14590"
     CDS             complement(join(1670..1686,1..466))
                     /locus_tag="FP481_RS14590"
                     /old_locus_tag="FP481_14590"
                     /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_261369537.1"
                     /translation="MGRDKMIYLEDEKTVLDFHKNLTGGKLVVYLTYDQLNAQNLPLSD
                     SYDLKVKRYNNGVYKVCWYKNLRKKSNTNPYQKFNLEKRLKMSKEELEKLEEEQRRSHI
                     FEVKNLIKDYVLSNHFDMFWTLTFDPKKYDGEVSDELAYDLMRKWLHKMRNTLPKI"
                     /name="hypothetical protein"
     gene            complement(1012..1650)
                     /locus_tag="FP481_RS14595"
                     /old_locus_tag="FP481_14595"
     CDS             complement(1012..1650)
                     /locus_tag="FP481_RS14595"
                     /old_locus_tag="FP481_14595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001807873.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_041203778.1"
                     /translation="MSKEELEKLEEEQRRSHIFEVKNLIKDYVLSNHFDMFWTLTFDPK
                     KYDGEVSDELAYDLMRKWLHKMRNTHKRKSDEPFNYIAIPERHKSGQIHWHMLTGYIEP
                     NLIDSGKTFRNQKVYNCMDWKHGFTNVQKMRSKSKVSSYMTKYITKDLLYSPVRKHKRK
                     YWCSKGLALPEVYAGNYSEVADVLPLYDENGQLNPTHSNDVCDIWLFKV"
                     /name="hypothetical protein"
ORIGIN
        1 tatttctcat tttatgaagc cacttacgca tcaaatcata agctaattca tcactaacct
       61 caccgtcata tttttttgga tcaaacgtca acgtccaaaa catatcaaag tgattagaca
      121 atacatagtc cttaattaaa ttttttactt caaaaatatg acttcttcgt tgctcttcct
      181 ctaatttttc cagctcttct ttagacattt ttaagcgttt ttcgaggtta aatttttggt
      241 agggattagt gttagatttt ttgcgtaaat ttttgtacca acaaacttta taaacgccgt
      301 tgttataacg tttaaccttc aaatcataag agtcagaaag gggtaaattt tgtgcgttaa
      361 gttggtcgta tgtcaagtag acgaccaact tccctcccgt caaatttttg tggaaatcca
      421 aaacagtttt ttcgtcttcc aaataaatca ttttatctcg acccataata aaaaatctcc
      481 tttccaatca ctgaaaaaga gtcacaacac ttccaaattt atcaacttga ttttacaaac
      541 cgaatacagt aacatacaag ttaacaaaag tactcgttac aacacaatct ttggtcggag
      601 ggtgctgtaa ctctttttta tttattttag ctatataata gcattaagag cgtgtacggt
      661 ctaatacaga ctgcgcacgc ccttttttat ttattccaat ttccttttgg acatggaacc
      721 tttaggctat atgtattgct gttggtgctt gcttggtcta atccccattc aatcactcac
      781 caacatttac agctagctgt aataacatat agccattttc catatcaaaa gttttctcgg
      841 cataaacaat caacacaaag agcttataca acgcttagga agcaaatata aacagtcagg
      901 catataaata tatatttata tataaatata aacgctatcg cgcgtatatg tgcttgctaa
      961 acgttccact agcgcatgga ctccgtcagc gcctcgcaag cacatatacg tttacacttt
     1021 gaataaccaa atatcacaaa catcattgct atgcgtcggg tttaactgcc cattttcatc
     1081 gtatagcggc aaaacatcag ctacttcaga ataattgcct gcatacacct cgggcaatgc
     1141 taagcccttg ctacaccaat acttacgctt atgctttcta acaggactat atagtaaatc
     1201 tttcgtgatg tatttagtca tatagctact cacttttgat ttcgaccgca ttttttgaac
     1261 gttcgtaaat ccatgcttcc agtccatgca attatatact ttctgatttc taaacgtctt
     1321 gccactatca atcaaattcg gctcaatgta accagtcaac atatgccagt gaatttggcc
     1381 acttttatga cgctctggta tcgctatata attaaacggc tcatcacttt tacgcttatg
     1441 agtatttctc attttatgaa gccacttacg catcaaatca taagctaatt catcactaac
     1501 ctcaccgtca tatttttttg gatcaaacgt caacgtccaa aacatatcaa agtgattaga
     1561 caatacatag tccttaatta aattttttac ttcaaaaata tgacttcttc gttgctcttc
     1621 ctctaatttt tccagctctt ctttagacat ttttaagcgt ttttcgaggt taaatttttg
     1681 gtaggg
//
