LOCUS       NZ_CP113012             4949 bp    DNA     linear   CON 14-JAN-2024
DEFINITION  Staphylococcus aureus strain Zed plasmid unnamed4.
ACCESSION   NZ_CP113012
VERSION     NZ_CP113012.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31523632
            Assembly: GCF_026625265.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4949)
  AUTHORS   Huang,Y.-T. and Liu,P.-Y.
  TITLE     Whole genome sequencing of methicillin-resistant Staphylococcus
            aureus
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4949)
  AUTHORS   Huang,Y.-T. and Liu,P.-Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-OCT-2022) Computer Science and Information
            Engineering, National Chung Cheng University, No.168, Sec. 1,
            University Rd., Min-Hsiung Township, Chia-yi County 621, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: flye v. 2.8.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 180x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/14/2024 02:53:22
            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)                     :: 3,154
            CDSs (total)                      :: 3,074
            Genes (coding)                    :: 2,965
            CDSs (with protein)               :: 2,965
            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)              :: 109
            CDSs (without protein)            :: 109
            Pseudo Genes (ambiguous residues) :: 0 of 109
            Pseudo Genes (frameshifted)       :: 62 of 109
            Pseudo Genes (incomplete)         :: 47 of 109
            Pseudo Genes (internal stop)      :: 21 of 109
            Pseudo Genes (multiple problems)  :: 20 of 109
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP113012.1.
            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/
FEATURES             Location/Qualifiers
     source          1..4949
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Zed"
                     /isolation_source="environmental"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed4"
                     /geo_loc_name="Taiwan"
                     /lat_lon="24.23321 N 120.9417 E"
                     /collection_date="2022-06-01"
                     /collected_by="Po-Yu Liu"
     gene            complement(10..591)
                     /locus_tag="OS078_RS00065"
     CDS             complement(10..591)
                     /locus_tag="OS078_RS00065"
                     /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            1043..2038
                     /locus_tag="OS078_RS00070"
     CDS             1043..2038
                     /locus_tag="OS078_RS00070"
                     /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"
     gene            2597..3592
                     /locus_tag="OS078_RS00075"
     CDS             2597..3592
                     /locus_tag="OS078_RS00075"
                     /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_267836445.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAYNVKQCGNVLEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EEVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKGNYITQEEWVNLWQKALQVDYRPVANIKAI
                     KPNQKGDKDIESAIKETSKYSVKSSDFLTDNDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDAEDGNLINTSDEDKITDEEAKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            complement(4575..>4949)
                     /locus_tag="OS078_RS00080"
                     /pseudo=""
     CDS             complement(4575..>4949)
                     /locus_tag="OS078_RS00080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991701.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     Typing          2109..2273
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.398"
                     /coverage="100.0"
                     /evalue="1.13e-79"
     Typing          3663..3827
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.398"
                     /coverage="100.0"
                     /evalue="1.13e-79"
     Typing          1044..2038
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2598..3592
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.586"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 attatatatt tagaaccatc cgtatttcag agtacattgt acatcctttg aaaccatagt
       61 agctgcaatt ccagctaaat ttccttttat gccaattctg gctaattttt ttgctgcact
      121 ctttatgttt ttggctttta catcatcaaa aactgctgcg attatattac cggttaaaag
      181 ttctccatat gagtttaaaa cttcagaata gaaacagtca ttactatttt tgtagtttcc
      241 accaactgct ctaggtgata ttgagctatt tttcttttta ttctctatgt cgttctttag
      301 tttttggaaa ccttcaggaa catatccata tctagatttg gcattttcta gattaacatc
      361 tttagcggtt ccgtctttat ctaaaacaat aattttgcca tatatgtagt ctagttcttt
      421 ttcgatttct ttttcgttta aagtttcaat gtttttatct gcgatgttgt ttttgttttg
      481 ggcttgagct tctttaaaat taaaattcaa gaccattgaa agtatagtta aaaaacttaa
      541 agatattact aaaacttttc ttagtgatac acttttttga attgcattca ttataaatgc
      601 ccccttgttt tgttatttaa atgaatccaa tataatatta acatataaaa acaaaggagt
      661 ttaatatgaa taagtttatt tattttttaa ttgttttatt gtccgtattt ttaatattta
      721 attttgttaa ttcgatttta tttaataatc cttttgactt tttagaaagc tttatttatt
      781 cgttggtttt cacattgatt tatttaggtt tagagggcta taaagagaaa aagaaataga
      841 ttgtttttga aacgagttga aaacgagttt cttcttgtct tgatactata tagaaataac
      901 tcgattttat atatatagct gtaactgttg atattacagc gtttaaacgt gtttttgtgc
      961 gtgaaaggaa aatttgacaa taaaaaaccc cagttatatt attaaggtgt cgaatcttaa
     1021 ataatactgg gggtcttttt atatgcaata taatactact agaagtataa ccgaaaatca
     1081 agataataaa acgttaaaag atatgacgaa aagtgggaaa caacgcccat ggagagaaaa
     1141 gaaaatagat aatgtaagct atgcagatat acttgaaatt ttaaaaataa aaaaggctta
     1201 taacgtaaaa caatgtggta acgtcttaga attcaagccg accgatgaag gttatttgaa
     1261 attacataag acgtggtttt gtaaatcaaa gctatgtcca gtttgtaatt ggaggcgtgc
     1321 tatgaaaaat agttatcaag ctcaaaaagt gattgaagaa gtaattaagg aaaagccaaa
     1381 agcacgttgg ttgtttttaa cactttcaac caaaaatgcg atagatggag atactttaga
     1441 acaaagtttg aagcatctaa ctaaagcatt tgataggttg agtagatata aaaaggttaa
     1501 acaaaatctt gttggattta tgcgttcaac agaagttacc gttaataaaa atgatggtag
     1561 ttataatcag catatgcacg ttttgttatg tgttgaaaat gcatatttta gaaaaaaaga
     1621 gaattatata actcaagaag aatgggttaa tttatggcaa aaagcattac aagttgatta
     1681 tcgacctgtt gcaaatatta aagcaattaa acctaatcaa aaaggcgata aagatattga
     1741 atcggcaatc aaagagacat caaaatattc ggttaagtca tctgattttt taactgacaa
     1801 tgacgaaaaa aatcaagaaa ttgtaagtga tttagaaaaa ggtttatatc gaaaacgtat
     1861 gttaagttat ggtggattgc ttaaacaaaa gcataaaatt ttaaacttag acgatgctga
     1921 agatggtaat ttaattaata caagtgatga agataaaata acagatgaag aagcaaaagc
     1981 acattcaatt acggcaattt ggaattttga aaaacaaaat tattatttaa gacattagtg
     2041 atgactgatg tcttttttat tgattttttg taaaaaagta ctgtcttatt tttgtgacaa
     2101 atgctgtatg tagtgtcaca aaactgtgac aaacgcaata tattgtgtca caaaagtgtg
     2161 acactacagc tttttatgat atcactttaa aattacttaa aacccttgga atgtctggct
     2221 ttgccagacc tatcattttt gaatgatagc aaattctcct tatgctctta cggagttctt
     2281 agagaaaaat taaaaattct cgatttttga taaaaagcgc cctgcaggaa tttagaaaaa
     2341 catggggaag tttttaaagg attttatgct aatttttaat ttgcatgtaa atgggcagtg
     2401 tccgaaaaat cgacactggg tttgatcgaa tttttgatta taaaaaattt ttgattataa
     2461 aatcagaata tatttatttt tttttttttt tttttttttt tttttttttt gtgcgtgaaa
     2521 ggaaaatttg acaataaaaa accccagtta tattattaag gtgtcgaatc ttaaataata
     2581 ctgggggtct ttttatatgc aatataatac tactagaagt ataaccgaaa atcaagataa
     2641 taaaacgtta aaagatatga cgaaaagtgg gaaacaacgc ccatggagag aaaagaaaat
     2701 agataatgta agctatgcag atatacttga aattttaaaa ataaaaaagg cttataacgt
     2761 aaaacaatgt ggtaacgtct tagaattcaa gccgaccgat gaaggttatt tgaaattaca
     2821 taagacgtgg ttttgtaaat caaagctatg tccagtttgt aattggaggc gtgctatgaa
     2881 aaatagttat caagctcaaa aagtgattga agaagtaatt aaggaaaagc caaaagcacg
     2941 ttggttgttt ttaacacttt caaccaaaaa tgcgatagat ggagatactt tagaacaaag
     3001 tttgaagcat ctaactaaag catttgatag gttgagtaga tataaaaagg ttaaacaaaa
     3061 tcttgttgga tttatgcgtt caacagaagt taccgttaat aaaaatgatg gtagttataa
     3121 tcagcatatg cacgttttgt tatgtgttga aaatgcatat tttagaaaaa aagggaatta
     3181 tataactcaa gaagaatggg ttaatttatg gcaaaaagca ttacaagttg attatcgacc
     3241 tgttgcaaat attaaagcaa ttaaacctaa tcaaaaaggc gataaagata ttgaatcggc
     3301 aatcaaagag acatcaaaat attcggttaa gtcatctgat tttttaactg acaatgacga
     3361 aaaaaatcaa gaaattgtaa gtgatttaga aaaaggttta tatcgaaaac gtatgttaag
     3421 ttatggtgga ttgcttaaac aaaagcataa aattttaaac ttagacgatg ctgaagatgg
     3481 taatttaatt aatacaagtg atgaagataa aataacagat gaagaagcaa aagcacattc
     3541 aattacggca atttggaatt ttgaaaaaca aaattattat ttaagacatt agtgatgact
     3601 gatgtctttt ttattgattt tttgtaaaaa agtactgtct tatttttgtg acaaatgctg
     3661 tatgtagtgt cacaaaactg tgacaaacgc aatatattgt gtcacaaaag tgtgacacta
     3721 cagcttttta tgatatcact ttaaaattac ttaaaaccct tggaatgtct ggctttgcca
     3781 gacctatcat ttttgaatga tagcaaattc tccttatgct cttacggagt tcttagagaa
     3841 aaattaaaaa ttctcgattt ttgataaaaa gcgccctgca ggaatttaga aaaacatggg
     3901 ggaagtttta aaggatttta tgctaatttt taatttgcat gtaaatgggc agtgtccgaa
     3961 aaatcgacac tgggtttgat cgaatttttg attataaaaa atttttgatt ataaaatcag
     4021 aatatattta tttggctcat atttgcgttt taagaaacaa ataagataat acaggtataa
     4081 aactatatat ttttaaagtt cgttctaaat acccccttaa aatgcaaaat aagtatattc
     4141 gattattaca cgtaaatttt ggttttagct cgacgcattt ttaagtatgt aaatgcgcct
     4201 cttggataac gaaaaataaa aaatcttaat taaacagagt ttaactaaga tagtcacgaa
     4261 ttttattagg tttaaaaatt atgattactt cagatgttta gaattaaggt gttgattata
     4321 gtgtgaatga aagcaaggga taataattag taaatcagtg cacaattaat gttttattta
     4381 agggatagtt acacgcataa tcaaacatgc atttatgccg agaaaattta ttgatgttga
     4441 gaagaaccct taactaaact tgaagacgaa tgtcggcata gcgtgagcta ttaagccgac
     4501 gattcgacaa gtttagggat tgttaagggt tccgaggctc aacgtcaata aagcaattgg
     4561 aataaattat atatttagaa ccatccgtat ttcagagtac attgtacatc ctttgaaacc
     4621 atagtagctg caattccagc taaatttcct tttatgccaa ttctggctaa tttttttgct
     4681 gcactcttta tgtttttggc ttttacatca tcaaaaactg ctgcgattat attaccggtt
     4741 aaaagttctc catatgagtt taaaacttca gaatagaaac agtcattact atttttgtag
     4801 tttccaccaa ctgctctagg tgatattgag ctatttttct ttttattctc tatgtcgttc
     4861 tttagttttt ggaaaccttc aggaacatat ccatatctag atttggcatt ttctagatta
     4921 acatctttag cggttccgtc tttatctaa
//
