LOCUS       NZ_CP113031             5187 bp    DNA     linear   CON 14-JAN-2024
DEFINITION  Staphylococcus aureus strain Akali plasmid unnamed2.
ACCESSION   NZ_CP113031
VERSION     NZ_CP113031.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31523637
            Assembly: GCF_026625365.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 5187)
  AUTHORS   Huang,Y.-T. and Liu,P.-Y.
  TITLE     Whole genome sequencing of methicillin-resistant Staphylococcus
            aureus
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5187)
  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                   :: 306x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/14/2024 03:23:48
            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)                     :: 3,172
            CDSs (total)                      :: 3,092
            Genes (coding)                    :: 2,979
            CDSs (with protein)               :: 2,979
            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)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 59 of 113
            Pseudo Genes (incomplete)         :: 51 of 113
            Pseudo Genes (internal stop)      :: 23 of 113
            Pseudo Genes (multiple problems)  :: 19 of 113
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP113031.1.
            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..5187
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Akali"
                     /isolation_source="environmental"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /geo_loc_name="Taiwan"
                     /lat_lon="24.23321 N 120.9417 E"
                     /collection_date="2022-06-01"
                     /collected_by="Po-Yu Liu"
     gene            complement(<1..780)
                     /locus_tag="OS080_RS00125"
                     /pseudo=""
     CDS             complement(<1..780)
                     /locus_tag="OS080_RS00125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="frameshifted; incomplete; missing C-terminus;
                     Derived by automated computational analysis using gene
                     prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /name="protein rep"
     gene            1233..1814
                     /locus_tag="OS080_RS00130"
     CDS             1233..1814
                     /locus_tag="OS080_RS00130"
                     /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            complement(2797..3792)
                     /locus_tag="OS080_RS00135"
     CDS             complement(2797..3792)
                     /locus_tag="OS080_RS00135"
                     /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            4244..4825
                     /locus_tag="OS080_RS00140"
     CDS             4244..4825
                     /locus_tag="OS080_RS00140"
                     /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"
     Typing          complement(2563..2727)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.398"
                     /coverage="100.0"
                     /evalue="1.13e-79"
     Typing          complement(2..780)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.897"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2798..3792)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atttcttgat ttttttcgtc attgtcagtt aaaaaatcag atgacttaac cgaatatttt
       61 gatgtctctt tgattgccga ttcaatatct ttatcgcctt tttgattagg tttaattgct
      121 ttaatatttg caacaggtcg ataatcaact tgtaatgctt tttgccataa attaacccat
      181 tcttcttgag ttatataatt ctcttttttt tctaaaatat gcattttcaa cacataacaa
      241 aacgtgcata tgctgattat aactaccatc atttttatta acggtaactt ctgttgaacg
      301 cataaatcca acaagatttt gtttaacctt tttatatcta ctcaacctat caaatgcttt
      361 agttagatgc ttcaaacttt gttctaaagt atctccatct atcgcatttt tggttgaaag
      421 tgttaaaaac aaccaacgtg cttttggctt ttccttaatt acttcttcaa tcactttttg
      481 agcttgataa ctatttttca tagcacgcct ccaattacaa actggacata gctttgattt
      541 acaaaaccac gtcttatgta atttcaaata accttcatcg gtcggcttga attctaagac
      601 gttaccacat tgttttacgt tataagcctt ttttattttt aaaatttcaa gtatatctgc
      661 atagcttaca ttatctattt tcttttctct ccatgggcgt tgtttcccac ttttcgtcat
      721 atcttttaac gttttattat cttgattttc ggttatactt ctagtagtat tatattgcat
      781 ataaaaagac cccccagtat tatttaagat tcgacacctt aataatataa ctggggtttt
      841 ttattgtcaa attttccttt cacgcacaaa aacacgttta aacgctgtaa tatcaacagt
      901 tacagctata tatataaaat cgagttattt ctatatagta tcaagacaag aagaaactcg
      961 ttttcaactc gtttcaaaaa caatctattt ctttttctct ttatagccct ctaaacctaa
     1021 ataaatcaat gtgaaaacca acgaataaat aaagctttct aaaaagtcaa aaggattatt
     1081 aaataaaatc gaattaacaa aattaaatat taaaaatacg gacaataaaa caattaaaaa
     1141 ataaataaac ttattcatat taaactcctt tgtttttata tgttaatatt atattggatt
     1201 catttaaata acaaaacaag ggggcattta taatgaatgc aattcaaaaa agtgtatcac
     1261 taagaaaagt tttagtaata tctttaagtt ttttaactat actttcaatg gtcttgaatt
     1321 ttaattttaa agaagctcaa gcccaaaaca aaaacaacat cgcagataaa aacattgaaa
     1381 ctttaaacga aaaagaaatc gaaaaagaac tagactacat atatggcaaa attattgttt
     1441 tagataaaga cggaaccgct aaagatgtta atctagaaaa tgccaaatct agatatggat
     1501 atgttcctga aggtttccaa aaactaaaga acgacataga gaataaaaag aaaaatagct
     1561 caatatcacc tagagcagtt ggtggaaact acaaaaatag taatgactgt ttctattctg
     1621 aagttttaaa ctcatatgga gaacttttaa ccggtaatat aatcgcagca gtttttgatg
     1681 atgtaaaagc caaaaacata aagagtgcag caaaaaaatt agccagaatt ggcataaaag
     1741 gaaatttagc tggaattgca gctactatgg tttcaaagga tgtacaatgt actctgaaat
     1801 acggatggtt ctaaatatat aatttattcc aattgcttta ttgacgttga gcctcggaac
     1861 ccttaacaat ccctaaactt gtcgaatcgt cggcttaata gctcacgcta tgccgacatt
     1921 cgtcttcaag tttagttaag ggttcttctc aacatcaata aattttctcg gcataaatgc
     1981 atgtttgatt atgcgtgtaa ctatccctta aataaaacat taattgtgca ctgatttact
     2041 aattattatc ccttgctttc attcacacta taatcaacac cttaattcta aacatctgaa
     2101 gtaatcataa tttttaaacc taataaaatt cgtgactatc ttagttaaac tctgtttaat
     2161 taagattttt tatttttcgt tatccaagag gcgcatttac atacttaaaa atgcgtcgag
     2221 ctaaaaccaa aatttacgtg taataatcga atatacttat tttgcatttt aagggggtat
     2281 ttagaacgaa ctttaaaaat atatagtttt atacctgtat tatcttattt gtttcttaaa
     2341 acgcaaatat gagccaaata aatatattct gattttataa tcaaaaattt tttataatca
     2401 aaaattcgat caaacccagt gtcgattttt cggacactgc ccatttacat gcaaattaaa
     2461 aattagcata aaatccttta aaacttcccc catgtttttc taaattcctg cagggcgctt
     2521 tttatcaaaa atcgagaatt tttaattttt ctctaagaac tccgtaagag cataaggaga
     2581 atttgctatc attcaaaaat gataggtctg gcaaagccag acattccaag ggttttaagt
     2641 aattttaaag tgatatcata aaaagctgta gtgtcacact tttgtgacac aatatattgc
     2701 gtttgtcaca gttttgtgac actacataca gcatttgtca caaaaataag acagtacttt
     2761 tttacaaaaa atcaataaaa aagacatcag tcatcactaa tgtcttaaat aataattttg
     2821 tttttcaaaa ttccaaattg ccgtaattga atgtgctttt gcttcttcat ctgttatttt
     2881 atcttcatca cttgtattaa ttaaattacc atcttcagca tcgtctaagt ttaaaatttt
     2941 atgcttttgt ttaagcaatc caccataact taacatacgt tttcgatata aacctttttc
     3001 taaatcactt acaatttctt gatttttttc gtcattgtca gttaaaaaat cagatgactt
     3061 aaccgaatat tttgatgtct ctttgattgc cgattcaata tctttatcgc ctttttgatt
     3121 aggtttaatt gctttaatat ttgcaacagg tcgataatca acttgtaatg ctttttgcca
     3181 taaattaacc cattcttctt gagttatata attctctttt tttctaaaat atgcattttc
     3241 aacacataac aaaacgtgca tatgctgatt ataactacca tcatttttat taacggtaac
     3301 ttctgttgaa cgcataaatc caacaagatt ttgtttaacc tttttatatc tactcaacct
     3361 atcaaatgct ttagttagat gcttcaaact ttgttctaaa gtatctccat ctatcgcatt
     3421 tttggttgaa agtgttaaaa acaaccaacg tgcttttggc ttttccttaa ttacttcttc
     3481 aatcactttt tgagcttgat aactattttt catagcacgc ctccaattac aaactggaca
     3541 tagctttgat ttacaaaacc acgtcttatg taatttcaaa taaccttcat cggtcggctt
     3601 gaattctaag acgttaccac attgttttac gttataagcc ttttttattt ttaaaatttc
     3661 aagtatatct gcatagctta cattatctat tttcttttct ctccatgggc gttgtttccc
     3721 acttttcgtc atatctttta acgttttatt atcttgattt tcggttatac ttctagtagt
     3781 attatattgc atataaaaag acccccagta ttatttaaga ttcgacacct taataatata
     3841 actggggttt tttattgtca aattttcctt tcacgcacaa aaacacgttt aaacgctgta
     3901 atatcaacag ttacagctat atatataaaa tcgagttatt tctatatagt atcaagacaa
     3961 gaagaaactc gttttcaact cgtttcaaaa acaatctatt tctttttctc tttatagccc
     4021 tctaaaccta aataaatcaa tgtgaaaacc aacgaataaa taaagctttc taaaaagtca
     4081 aaaggattat taaataaaat cgaattaaca aaattaaata ttaaaaatac ggacaataaa
     4141 acaattaaaa aataaataaa cttattcata ttaaactcct ttgtttttat atgttaatat
     4201 tatattggat tcatttaaat aacaaaacaa gggggcattt ataatgaatg caattcaaaa
     4261 aagtgtatca ctaagaaaag ttttagtaat atctttaagt tttttaacta tactttcaat
     4321 ggtcttgaat tttaatttta aagaagctca agcccaaaac aaaaacaaca tcgcagataa
     4381 aaacattgaa actttaaacg aaaaagaaat cgaaaaagaa ctagactaca tatatggcaa
     4441 aattattgtt ttagataaag acggaaccgc taaagatgtt aatctagaaa atgccaaatc
     4501 tagatatgga tatgttcctg aaggtttcca aaaactaaag aacgacatag agaataaaaa
     4561 gaaaaatagc tcaatatcac ctagagcagt tggtggaaac tacaaaaata gtaatgactg
     4621 tttctattct gaagttttaa actcatatgg agaactttta accggtaata taatcgcagc
     4681 agtttttgat gatgtaaaag ccaaaaacat aaagagtgca gcaaaaaaat tagccagaat
     4741 tggcataaaa ggaaatttag ctggaattgc agctactatg gtttcaaagg atgtacaatg
     4801 tactctgaaa tacggatggt tctaaatata taatttattc caattgcttt attgacgttg
     4861 agcctcggaa cccttaacaa tccctaaact tgtcgaatcg tcggcttaat agctcacgct
     4921 atgccgacat tcgtcttcaa gtttagttaa gggttcttct caacatcaat aaattttctc
     4981 ggcataaatg catgtttgat tatgcgtgta actatccctt aaataaaaca ttaattgtgc
     5041 actgatttac taattattat cccttgcttt cattcacact ataatcaaca ccttaattct
     5101 aaacatctga agtaatcata atttttaaac ctaataaaat tcgtgactat cttagttaaa
     5161 ctctgtttaa ttaagatttt ttttttt
//
