Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,512 A→G 30.0% S194S (TCA→TCG)  USA300HOU_0110 → possible staphylococcal tandem lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730111,5120AG30.0% 58.6 / 32.9 52S194S (TCA→TCG) USA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (17/18);  new base G (7/8);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

CTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAA  >  CP000730/111373‑111651
                                                                                                                                           |                                                                                                                                           
ttACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAg                                                                                                                                            <  2:22415/140‑1 (MQ=255)
 tACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGc                                                                                                                                           >  1:328050/1‑141 (MQ=255)
   cTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCta                                                                                                                                         <  1:194787/141‑2 (MQ=255)
      aGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTTTTTTTTTTTGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCTGAGGTGCCGAGTTATTCTGCTAAat                                                                                                                                      >  2:376732/1‑141 (MQ=18)
       ggAAGTTAAAGAAGAATACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATGTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAata                                                                                                                                     >  1:190692/1‑141 (MQ=255)
       ggAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAACCCAGAGGTGCCGAGTTATTCGGCTAAata                                                                                                                                     <  1:309460/141‑1 (MQ=255)
          aGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCa                                                                                                                                  <  2:357487/141‑1 (MQ=255)
             tAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAAtt                                                                                                                               <  1:318219/141‑1 (MQ=255)
                agaagaAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAACATAGCACCTTTAAAGATTTATTGAATTATAAAGATGAAGATATATCATAACATACCGAGGTGACGATTTATTCGTCTATATATCAATTaca                                                                                                                            >  2:50529/1‑139 (MQ=17)
                  aagaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCAAAATATCAATTAACTa                                                                                                                          <  1:189908/141‑1 (MQ=255)
                    gaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTAAGCTAAATATCAATTAACTAat                                                                                                                        >  2:69801/1‑141 (MQ=255)
                        aCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATAAATTAACTAatgata                                                                                                                    >  2:32151/1‑140 (MQ=255)
                            aaaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGGTAAttt                                                                                                                >  2:187990/1‑140 (MQ=255)
                            aaaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATta                                                                                                                >  1:311738/1‑141 (MQ=255)
                            aaaaaaaGAAATCGAAAACGTTAAGTTTTTTGCGCAATATAGCAGTTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATta                                                                                                                >  1:209545/1‑141 (MQ=255)
                               aacaGAAATCGAACACTTTAAGTATCTCGCGCAATATAACAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATaa                                                                                                             <  1:317667/138‑1 (MQ=17)
                                 aaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATg                                                                                                           >  2:313021/1‑141 (MQ=255)
                                   aaaaTCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTa                                                                                                         <  1:187548/140‑1 (MQ=255)
                                   aaaaTCGAAAACTTGAAGTTTTTTGCGAAATATAGTAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTa                                                                                                         <  2:359575/140‑1 (MQ=255)
                                        cGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACa                                                                                                    >  2:334282/1‑141 (MQ=255)
                                        cGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTGAATGAATTATAAAGATGGAGATATATAATATAATCCAGAGGAGCCGAGTTATTCAGCTCAATTTCAATTAACTAATGATGATTATAATGTAAAACa                                                                                                    >  2:210024/1‑141 (MQ=255)
                                         gAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACaa                                                                                                   <  1:367739/141‑1 (MQ=255)
                                         gAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACaa                                                                                                   >  1:147285/1‑141 (MQ=255)
                                         gAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACaa                                                                                                   <  1:72316/141‑1 (MQ=255)
                                          aaaaCTTTAAGTTTTTTGCGCAATATAGTAATTTTAAAGATTTAATAAATTATAAATATGGATGAATATCATATATTCTTGTGGTTGCGCTTTATTAAAAGCAATGTCAATTAACTAATGATGATTATAATGTAAAACaag                                                                                                  <  2:125913/141‑2 (MQ=16)
                                          aaaaCTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                                                  <  1:266367/141‑1 (MQ=255)
                                          aaaaCTTTAAGGTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGTTCGAGGTATATCAGATAATCCTGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                                                  <  2:126731/141‑1 (MQ=21)
                                               tttAAGTTTTTTGCGCAACATACCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACgc                                                                                             <  1:364006/141‑2 (MQ=17)
                                                   aGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaaa                                                                                         >  1:59656/1‑141 (MQ=255)
                                                          tGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCCGCCAAAAATCAATGAACGAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGa                                                                                  <  2:367564/141‑1 (MQ=17)
                                                            ttttttttaGCAATATTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCGAGAGCTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATCATAATGTAAAACAATTAGTAAAAAGATATGata                                                                                >  2:364976/8‑139 (MQ=14)
                                                            cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                                <  1:179514/141‑3 (MQ=255)
                                                                atatAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATAcc                                                                            <  1:45234/141‑1 (MQ=255)
                                                                         ttttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGCTATGACATACCAACAAATac                                                                   <  2:65252/141‑2 (MQ=255)
                                                                         ttttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATaa                                                                   <  1:371655/141‑1 (MQ=255)
                                                                           ttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATaaaa                                                                 >  2:224553/1‑140 (MQ=255)
                                                                                      aTGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACGTTTCAACAAATAAAGCGCCGAAGCtg                                                      <  2:368942/141‑1 (MQ=255)
                                                                                      aTGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtg                                                      <  1:299403/141‑1 (MQ=255)
                                                                                        gAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgtt                                                    >  1:100468/1‑141 (MQ=255)
                                                                                                aaGATTGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAg                                            <  1:297641/141‑1 (MQ=255)
                                                                                                 aGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAAGTAACTAATGATGATTATAATGTAAAACAAAAACGTAAAAGATATGAAATACCAACAAATAAAACGCCGAAGCTGTTGATGAAAgg                                           >  2:46101/1‑141 (MQ=17)
                                                                                                        gacttatCATATAACCCAGAGGTGCCGAGTTATTCAGGTCAATATCAATCAACCAACGATGATTATAATCTCAAACAATTCCTTAAAAGATATGACATACCAACATGTAAAGCTGCTAAGCTGTTGTTGAACGGTACTggg                                    <  2:143002/137‑1 (MQ=14)
                                                                                                          tatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGaa                                  <  2:17349/141‑1 (MQ=255)
                                                                                                             atCATATAATGCAGAGCTGCCGAGTTATTCAGCTCACTATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAttt                               <  1:1604/141‑1 (MQ=255)
                                                                                                                     aTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                       >  2:68091/1‑141 (MQ=255)
                                                                                                                            ggTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACAAACAAATAAAGTGGCGAAGCGGTGGTTGAAAGGTACAGGGAGTTTAAAAGGTTCATCAGt                >  1:124217/1‑141 (MQ=17)
                                                                                                                              tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTg              >  1:187062/1‑141 (MQ=255)
                                                                                                                              tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTg              >  1:357032/1‑141 (MQ=255)
                                                                                                                                ccGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGa            >  2:308716/1‑141 (MQ=255)
                                                                                                                                    gTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGAtata        >  2:242744/1‑141 (MQ=255)
                                                                                                                                      tactCAACTCAAAATCACATAACTAAGAATGATTATAATTTAAAACAATTACGGAAAAGATATGACATACCAACAAATTAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAATAGGATCATTATTTGGATATaaa      <  2:272112/138‑1 (MQ=14)
                                                                                                                                          cAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTTAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaaaa  >  2:158299/1‑141 (MQ=255)
                                                                                                                                           |                                                                                                                                           
CTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAA  >  CP000730/111373‑111651

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑