LOCUS       CP030486                3124 bp    DNA     circular BCT 10-OCT-2019
DEFINITION  Staphylococcus aureus strain ER03913.3 plasmid unnamed4, complete
            sequence.
ACCESSION   CP030486
VERSION     CP030486.1
DBLINK      BioProject: PRJNA470993
            BioSample: SAMN09484030
KEYWORDS    .
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3124)
  AUTHORS   Sullivan,M.J., Altman,D.R., Chacko,K., Cliferri,B., Webster,E.,
            Deikus,G., Lewis,M., Khan,Z., Beckford,C., Rendo,A., Samaroo,F.,
            Sebra,R., Karam-Howlin,R., Southwick,K., Adams,E., Ying,L.,
            Kornblum,J., Factor,S., Danesh Yazdi,M., Dingle,T., Hamula,C.,
            Bashir,A., Schadt,E., Kasarskis,A., Patel,G., Wallach,F., Gibbs,K.
            and van Bakel,H.
  TITLE     Whole genome sequencing to identify and define MRSA outbreaks
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3124)
  AUTHORS   Sullivan,M.J., Altman,D.R., Chacko,K., Cliferri,B., Webster,E.,
            Deikus,G., Lewis,M., Khan,Z., Beckford,C., Rendo,A., Samaroo,F.,
            Sebra,R., Karam-Howlin,R., Southwick,K., Adams,E., Ying,L.,
            Kornblum,J., Factor,S., Danesh Yazdi,M., Dingle,T., Hamula,C.,
            Bashir,A., Schadt,E., Kasarskis,A., Patel,G., Wallach,F., Gibbs,K.
            and van Bakel,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUN-2018) Genetics and Genomic Sciences, Icahn School
            of Medicine, One Gustave L. Levy Place Box 1498, New York, NY 10029,
            USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 2.2.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 340.704095187x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/29/2018 19:07:28
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            Annotation Method :: Best-placed reference protein set; GeneMarkS+
            Annotation Software revision      :: 4.5
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 3,216
            CDS (total)                       :: 3,134
            Genes (coding)                    :: 3,039
            CDS (coding)                      :: 3,039
            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)              :: 95
            Pseudo Genes (ambiguous residues) :: 0 of 95
            Pseudo Genes (frameshifted)       :: 45 of 95
            Pseudo Genes (incomplete)         :: 42 of 95
            Pseudo Genes (internal stop)      :: 29 of 95
            Pseudo Genes (multiple problems)  :: 20 of 95
            ##Genome-Annotation-Data-END##
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..3124
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="ER03913.3"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed4"
                     /geo_loc_name="USA:New York City"
                     /lat_lon="40.7903114 N 73.9528738 W"
                     /collection_date="2015"
                     /collected_by="Mount Sinai Hospital"
     gene            join(2718..3124,1..176)
                     /locus_tag="DQV49_16045"
                     /pseudo=""
     CDS             join(2718..3124,1..176)
                     /locus_tag="DQV49_16045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991705.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(502..690)
                     /locus_tag="DQV49_16050"
     CDS             complement(502..690)
                     /locus_tag="DQV49_16050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QFK48775.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     gene            1075..1266
                     /locus_tag="DQV49_16055"
     CDS             1075..1266
                     /locus_tag="DQV49_16055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001791934.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QFK48776.1"
                     /translation="MIGLAKPEIPGVLRYFKVISYKAVLSYFCDTIYCVCLIFVTLHTA
                     FVTKIRQYFFIKNQQKRH"
                     /name="hypothetical protein"
     gene            complement(1273..2268)
                     /locus_tag="DQV49_16060"
     CDS             complement(1273..2268)
                     /locus_tag="DQV49_16060"
                     /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="QFK48777.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            complement(2393..2623)
                     /locus_tag="DQV49_16065"
     CDS             complement(2393..2623)
                     /locus_tag="DQV49_16065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000584776.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QFK48778.1"
                     /translation="MIILLSVFLIFNFVNSILFDNPFDFLESFIYSLVFTLIYLGLEVI
                     KRRRNRLFFETSVNEFLLVLILYRNNSILYI"
                     /name="hypothetical protein"
     Typing          complement(1039..1203)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          complement(1274..2268)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gagaactttt aactggaaac ataatcacag cagtttttga agatgttaaa gccaaaaact
       61 taaagggcgt agcaaaaaaa ttagctaaaa ttgggataaa aggaaaccta gctggaatcg
      121 cagctactat ggtttcgaag gatgtacaat gtaatcttaa atacgggtta ctttagatac
      181 tatttattcc aattgcttta ttgacgttga gcctcggaac ccttaacaat cccaaaactt
      241 gtcgaatggt cggcttaata gctcacgcta tgccgacatt cgtctgcaag tttagttaag
      301 ggttcttctc aacatcaata aattttctcg gcataaatgc gtcgtctatt ttttattatc
      361 ttcatgataa tcatattttt cttccatctc gtcaaaagca tcatctttat agaaaaacaa
      421 aaagtaagca acaacaccaa taggaataaa aaaacagtgt gaaaacaaga agaaactcgt
      481 ttcaaaatcc cctcaaatat tctaattatt ctttttgaaa ttcataacct taacaaccaa
      541 ataaatagca tttattccca tcaaaataac atacggaatt aatatatata aattttccaa
      601 atgagatata aaaattaatc caagtaaaaa gaaaacattt aaaatagttg ctataacgta
      661 accttcatct aacactgtgt ttttattcaa aataaacact ccttttttaa aaaactttat
      721 cacaagactt actcaaatta taaatacctt tattttgagt tttaaggggg tattttaaag
      781 gtttaggggg tatcatatag gtttttaact taaaaatata tacaagctct taaaacgcaa
      841 atatgagcca aataaatata tggtaatttc acaaacaaaa atttcagcaa aaccagtgac
      901 taatttttta acactgccca tttacatgca aattaaaaat tagcataaaa tcctttaaaa
      961 cttccacatg tttttctaaa ttcctgcagg gcgtttttta tcaaaaatcg agaattttta
     1021 atttttctct aaaaactccg taagagcata aggagaattt gctatcattc aaaaatgata
     1081 ggtctggcaa agccagaaat tccaggggtt ttaaggtatt ttaaagtgat atcatacaaa
     1141 gctgtactgt cttatttttg tgacacaata tattgcgttt gtcttatttt tgtgacacta
     1201 catacagcat ttgtcacaaa aataagacag tactttttta taaaaaatca acaaaaaaga
     1261 cattagtcaa cactaatgtc ttaaataata attttgcttt tcgaaattcc aaattgcggt
     1321 aattgaatgt gctttttctt cttcgtctgt tgttttatct tcatcacttg cattaatcaa
     1381 attaccatct tcgacatcgt ctaagtttaa aattttatgt ttttgtttaa gcaatccacc
     1441 ataacttaac atacgttttc gatacaaacc tttttctaaa tcacttacaa tttcttgatt
     1501 tttttcatca tcatcagtta aaaaatcaga tgatttaacc gaatattttg aggtctcttt
     1561 gattgccgat tcaatgtctt tatcgccttt tctattcggt ttgatcgctt taacattagc
     1621 aacaggtcga tagtcaactt gtaatgctct ttgccataaa ttaacccatt cttcttgagt
     1681 tatataattc tctttttttc taaaatatgc attttcaaca cataacaaaa catgcatgtg
     1741 ctgattataa ctaccgtcat ttttattaac ggtaacttct gttgaacgca taaatccaac
     1801 aagattttgt ttaacctttt tatatctact caacctatca aatgctttag ttagatgctt
     1861 caaactttgt tctaaagtat ctccatctat cgcatttttt gttgaaagtg ttaaaaacaa
     1921 ccaacgtgct tttggctttt ccttaattac tttttcaatc actttttgag cttgataact
     1981 atttttcata gcacgtctcc aattacaaac cggacataat tttgatttac aaaaccatgt
     2041 cttatgtaac ttcaaatagc cttcatcagt tggcttaaat tctaaaatat taccacattg
     2101 ttttacatta aaagcctttt tgatttttaa aatttctagt atatctgcat agcttacatt
     2161 atctattttc ttttctctcc atgggcgttg tttcccactt ttcgtcatat cttttaacgt
     2221 tttattatct tgattttcgg ttatacttct agtagtatta tattgcatat aaaaagaccc
     2281 ccagtattat ttaagattcg acaccttaat aatataactg gggtttttta ttgtcaaatt
     2341 ttcctttcac gcacaaaaac acgtttaaac actgtaatat caacagttac agctatatat
     2401 ataaaatcga gttatttcta tatagtatca agacaagaag aaactcgttc acactcgttt
     2461 caaaaaacaa cctattcctt cttcttttta tgacctctaa acctaaataa attaatgtga
     2521 aaaccaatga ataaataaaa ctttctaaaa agtcaaaagg attatcaaat aaaatcgaat
     2581 taacaaaatt aaaaattaaa aatacagata ataaaataat caaaaagtaa aaaacttatt
     2641 catattaaac tcctttgttt ttatatgtta atattatatt gaattcattt aaataacaaa
     2701 acaagggggc atttacaatg aatgcaattc aaaacagtat atcactaaga aagattttag
     2761 tagtatcttt aagtatttta accatacttt caatggtctt ggattttaat ttcaaagaag
     2821 ctcaagccca aaacaaaaaa taacattgca gataaaaacg ttgaaacttt aaacgaaaaa
     2881 gaaattgaaa aagaactaaa atacatatat ggcaaaatta ttattttaga taaagacgga
     2941 acagctaaag atgttaatct agaaaatgcc aaatctcgat atggatatgt tcctgaagga
     3001 ttccaaaaac taaaaaacga catagagaat aaaaagaaaa ctagttcaat atcacctaga
     3061 gcagttggtg ggaactacaa aaatagcggt gactgtttct attctgaagt tttaaactca
     3121 tatg
//
