LOCUS       NZ_CP069475             5152 bp    DNA     circular CON 02-APR-2024
DEFINITION  Staphylococcus epidermidis strain FDAARGOS_1243 plasmid unnamed2,
            complete sequence.
ACCESSION   NZ_CP069475
VERSION     NZ_CP069475.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357385
            Assembly: GCF_016889165.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 5152)
  AUTHORS   Carlson,P., Fischbach,M., Hastie,J., Bilen,M., Cheng,A., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5152)
  AUTHORS   Carlson,P., Fischbach,M., Hastie,J., Bilen,M., Cheng,A., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.14.1
            Genome Coverage                   :: 3182.86x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_016889165.1-RS_2024_04_02
            Annotation Date                   :: 04/02/2024 04:37:37
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,447
            CDSs (total)                      :: 2,363
            Genes (coding)                    :: 2,300
            CDSs (with protein)               :: 2,300
            Genes (RNA)                       :: 84
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 63
            CDSs (without protein)            :: 63
            Pseudo Genes (ambiguous residues) :: 0 of 63
            Pseudo Genes (frameshifted)       :: 34 of 63
            Pseudo Genes (incomplete)         :: 37 of 63
            Pseudo Genes (internal stop)      :: 22 of 63
            Pseudo Genes (multiple problems)  :: 24 of 63
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069475.1.
            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..5152
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1243"
                     /culture_collection="FDA:FDAARGOS_1243"
                     /db_xref="taxon:1282"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA: MD"
                     /collected_by="FDA-Stanford Microbiome Effort"
ORIGIN
        1 ttataagtat aattctgaaa atatttcgaa tggtgtttct atagagttta aagctcgagc
       61 gttaagagaa tatttgaaat cgtataaaat taaaaagcaa tgtgaaatta acgttcatca
      121 tattttaaaa aaattgagtt ctgtatttga tataagatta tcaagattag atatagcaat
      181 tgattttata gatgaaaatt tattagttag taatctagca aatcaaataa aatatgatga
      241 aatattaatt aaaaacaaag gtaatagagt agtaaccaat gataaaatta gaacgcttgg
      301 aagtagtgga attgtacaaa ctatttatgt gaatagtcgt acaggcgatt cgtttttacg
      361 tgtgtatgat aaaaaagaag aatcaatctc taaaaatacg attgattcat ttaaagcttt
      421 aaattgtagt aattggacaa gattagaatt agagttaaaa agcacatacg ctcataatat
      481 aacaaagctt tttgttgatt gtgatgatga taataatgaa tttttatcat tattatatgg
      541 tgtgtttatc caattcttta aattctttaa aattattaca tatgatgata aaggttatcc
      601 aattttagag tatgccgatt tttatcagca gataatagat agtaataata gcgaaataac
      661 gcatgtagac ggtcatgaat ctaataatac gactgaattt gatttaaaat atcagaattt
      721 atttaaaaac ggtacaatga cttttttgaa aatgttttat gtagcttatg gtgaagatgt
      781 atttgatgaa ttagtttcaa aaatgaaaaa agatatgaaa gaaagagtta aattaaataa
      841 agaccataaa acaatgataa aaaatcataa gaacgatgat ccattcttta aaaagtaatg
      901 ggtcatcgtt tttttatttc tttcaaaact tcatcacgta aatattttat ttcttcatct
      961 tgataatgaa tgtgtatttc catttggtct acttgttgtt ggtatctatc taaatctatt
     1021 ttttgacgaa tattttcatc ttttatttta ttcatatgat ttttaaggtt agttatttta
     1081 tctaatttat ctttatagct aattttatcg ttattaatgt aatcaattag gtcatcaata
     1141 ttattaatat ttttgttatg ttctttattg ttaaatcttt tgcttagttc atataaatct
     1201 atgtcgtcga ttgaataata atctaattct ttatcaaata aagtcataat atattttact
     1261 gcatattcat taaagaaaag ttgtgttttg ccattatatc cttctgcttt tttataaatt
     1321 gctaacattt gattatttat atcttctaat acctttttag ttaattttct ttgtactgtt
     1381 gatttgtgtt tattacataa attagcaact tcttttattg aataaaattc tgtcattttg
     1441 aaaacctcct atttttcgtt tttaataaaa tcattaatgc accgatgaat cacattaaaa
     1501 taattttaaa gttttttatt aaatattgat ttaacagtat tttaacacat ataacgattg
     1561 atgtaaaaat atttacgcac cgatgtgaat cgattcataa tgtaattaac ctaaaaaaag
     1621 gaggttagct aatgtatcaa ttatcagata atcaaattaa aaattattta gtgaatacgt
     1681 ttaaagacac tgacatttta atgaaaaaac aatttgaaat tatagaaaat tgttcatctt
     1741 atttatcaaa aaatcttaat ctaccaatta aaaattatga taaaaattta gagatgttat
     1801 ttgaaatgtt aaaagagcaa caaaaaatga taagtaatca caaacgattt ttaattttat
     1861 ttgataaata tttcgatgaa gattattcgg attatattca tgaattagaa caacgtgaat
     1921 ttcatttgaa tagtcagatt agaggtttat cagttagtta tattcaaaaa aaggtgtgat
     1981 tcaattggaa gaagtaaaaa gcgtgacaat acttgaaaaa ttgaatagat tatcagaatt
     2041 agaaaatgat gtaatagcaa cattagacat gatatgtttt tatgtttcta attttcaaac
     2101 taaaacttta aaaaaagtaa atgatgaaga aaatgacgaa tctaaaaaat atgagatgaa
     2161 tcagattgta tataacaact taaaaacgat tatggattgc gttagcaatc ttgaatttgc
     2221 tattgatggt tatcaaacaa cagaaagtag aaagttatat gattatatac tttcaaataa
     2281 aataaattta attagagaaa aagaagatat tgagcatgat ttgatgttgg ctagaaaaca
     2341 agatgattca agtgataatc caagaaaaac ttcacttact ttggagccta aagataatgg
     2401 taaagattaa caagttatgt ataaagctta tgaagtatgt attgatattt tgtatcagat
     2461 tagtagttga gacatttaaa ttaattagta aattaatttg gatcagtagt aagtatgtaa
     2521 taacaaaaat aaaaaatagt ataggagcga tataaatggc aggtttaaaa gcattagata
     2581 actttgaaat ttttgatgta gaaggatttt taaaaggtaa agaattagtg atggtaagtt
     2641 gtgaaaaaaa ctataataag atgaaaaatg aagaaggtaa taaagtacca gacccaaata
     2701 gtccacgtgg attaaaattt gaaatcaaca ttgataagga taatgctgaa tatgaagtat
     2761 ttgatttcaa cacaaaagaa cgaaaaaagc aaaaaggtgt taatttccgt aaaagtttta
     2821 ttttgtttat tgataaacca gaattagaac cagaaaaatt tgatgatttt agcgttggcg
     2881 aaaaagttat gataaaaggt ttgaaaccta gtgaaacaat gcattttggt agtaatttga
     2941 ttgtcgttgc agatgattta gttaagttag aaagaaaaca accacaacaa taggagtgtg
     3001 attaaatgaa tcagttaaaa acaatttctt taaggtcacg acgacgacac ttgaagtatt
     3061 atgtttttct gatattcatc gctattattt tggttgttca gttatttaaa tttttgatgt
     3121 ttgaaatatc aaagcatatt gaaaatctta cctttgaacc gattggacac tggtttgata
     3181 aattaacatt tggacttttg gcgagtctgg gtatttatag cttatttgtt atattaatag
     3241 ctttgatgga cggggggatt atgaagaatt ataatcctct cttatctttt aaaaatcatt
     3301 tattaaagaa tcgaattgat aaagctttag taatggataa gatgtatatt gttgttgaat
     3361 cattagacga taaaaaaatt cagtatgcga aaacgccaaa aattaaaatt attagcgata
     3421 atgaaatcag aattatgaat ttagcaggtt taaacgataa gttagaatca tttaaagatg
     3481 aaatgactgt tgtactagag aatggtcgtg tggttgatac ttttcaacgt gatataacag
     3541 gtaaatattt cattgctgaa atacttgatt tgaaagcaga taatcaatat atatttgaaa
     3601 caatgcaaga ttatttggac gttgttaatt caaccgaaaa tcatataata ccgattatga
     3661 aaaacggtgt tcacattaat ttagctaaaa cgccacatat gttagtaagt ggtcaaactg
     3721 gttctggtaa atcgtattca ctgtatcatt taatgtttac tttgaaatta aagggtcatg
     3781 aattatttgt tatagataga aaacaagctt taacaaaatt agatacagtt ttaggtgtcg
     3841 atcatgtagc cgatgaaaat cctagagaat ctgaccaaat ttttgaattg gttgagaaag
     3901 ttgaaaatat aatgcttgaa agacaagata ttttaaaaaa tgatgaccga tttaaaaaag
     3961 atattgaagc aggtttcaaa aatgcaggtt ggaataatat ttgtttagta attgatgagt
     4021 taggagcatt aacaaatgat ttagcaggat taaaaaaaga gaaacgagat agattttata
     4081 gtgctttagg taatattgca atgaaaggtc gcagtacagg tgtttcatta atgattagtt
     4141 tacaacaagc aaacgctaat tcgtttaatg gtacaggtat acgtgaccaa ttaagcttta
     4201 aaatggtttt aggtaattca gatagacaaa ctagagaagt catgttcagt gcgcaagata
     4261 tatctgatgt gaaattgaaa ccaggtcagg cgtattttac aaaagcagat acacgtaata
     4321 aaccaggttt tttatttatg ccgacattca aatttgattt aacgctttcg aaccttgaaa
     4381 ctttgataga aatgcaaaat cgagataatt gagaatttat gccgagaaaa ttttttgtcg
     4441 ttgagagcct ttcatttaaa ctattcctag ttggcccacc agggcgaatt ttgcctggtg
     4501 gtacgacttt ggaaagtttg aaaggcgcag aatcgacgac aaaaaagcaa ttggaataaa
     4561 tcggagatta tcgttgatat tacgcttaac attgattgtg attgtgctac aataaaaaaa
     4621 gcaacgtaaa aacattttgg ccgatgttta cgttgcaggt ggtttagttg tgatttaatt
     4681 ttttgatgtg ttaattatac aattgtttcc caactgagta aagagtttgg gggcatttgc
     4741 gaaagcgttg cgtcgaccaa ccaaaacttt gaaaaaggtt tggcgagacg cataagcttg
     4801 agcgcttttt tgcccccctc cttttaataa ggggggcaaa gaattatcgt taaccactca
     4861 atttgtttag acgacctcaa ctaaaccccg ttattaagcg tttttcaacg gtttaggagg
     4921 ttttttgatg attagtgtaa aagtagacca attcacatta acaatattgc caaattcgaa
     4981 attattatca tatatgaacg atgatgttgt ttcatattct gaacatgttc gtgaagtatt
     5041 tgagcagtta ttagaaattg aagaagttta tagtcaagca gttgaatatg gtcgtggtgt
     5101 tcgaaactat gatacagttt attattatgg ctttgaaaag tcacaaatat tt
//
