Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,560 T→C 10.4% R210R (CGT→CGC USA300HOU_0110 → possible staphylococcal tandem lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730111,5600TC10.4% 151.5 / 4.8 63R210R (CGT→CGCUSA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (30/25);  new base C (4/3);  total (34/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACT  >  CP000730/111423‑111698
                                                                                                                                         |                                                                                                                                          
aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaa                                                                                                                                         >  1:167278/1‑141 (MQ=255)
    tttttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGat                                                                                                                                     >  2:83761/1‑141 (MQ=255)
      tttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGatat                                                                                                                                   >  2:410376/1‑141 (MQ=255)
       ttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGGGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAGCTAATGATGATTATAATGTAAAACAATCAAGTAAAAGagaag                                                                                                                                  >  2:411294/1‑137 (MQ=21)
       ttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATg                                                                                                                                  >  2:425997/1‑141 (MQ=255)
         gcgcAATAGAGCAATTTTAAAGAGTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGAc                                                                                                                                <  1:191837/141‑1 (MQ=255)
          cgccaagaaGCGATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                                                                               <  2:529765/133‑3 (MQ=11)
           gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAACAGATATAACaa                                                                                                                              >  2:723512/1‑140 (MQ=255)
            ttttttttcAATTATAAAGATTTAATGAATTATAAAAATGGAGATGTATCATATAATCTGGAGGTGCCGAGTTATTTATTTTATTATTATTTAAATAATGATGATTATAATGTAAAACAATTACGTAAAAGATTTgtaata                                                                                                                             >  2:745590/9‑136 (MQ=12)
            cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                                                                             >  1:598968/1‑141 (MQ=255)
               aataGCTATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCACAAGATATGATATAccg                                                                                                                          >  2:69479/2‑140 (MQ=14)
                  aGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTTTAATGTAAAACAAGTACGTAAAAGATATGACATACcaaca                                                                                                                       >  1:440408/1‑141 (MQ=255)
                    aaaTTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAccgacgag                                                                                                                     <  1:470544/140‑7 (MQ=11)
                          tAAAGGTTAAAAGAATTATAAAGATTGAGATATAGCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgc                                                                                                               <  2:593399/141‑1 (MQ=17)
                            aaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcgc                                                                                                             >  2:444928/1‑141 (MQ=255)
                              gATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCATTTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCg                                                                                                           >  2:51392/1‑141 (MQ=255)
                              gATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCg                                                                                                           <  2:763239/141‑1 (MQ=255)
                                tttAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGaa                                                                                                         <  2:377912/141‑1 (MQ=255)
                                     tGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgt                                                                                                    <  1:523784/141‑1 (MQ=255)
                                     tGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATATAAAACAATTACGTAAAAGATATGACATACCAAGAAATAAAGCGCCGAAGCtgt                                                                                                    <  1:491838/141‑1 (MQ=255)
                                       aaTTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgttg                                                                                                  >  1:270730/1‑141 (MQ=255)
                                        aTTATAAAGATGGTGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAAAAAGAAGGAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgttgt                                                                                                 <  1:360219/141‑1 (MQ=17)
                                                gATGAAGATATATCATATAATCCAGATGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGt                                                                                         <  2:596509/141‑1 (MQ=255)
                                                      gaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAggg                                                                                   <  1:676119/141‑1 (MQ=255)
                                                       atatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTAAAGGGa                                                                                  >  2:435717/1‑141 (MQ=255)
                                                          tatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAtt                                                                               >  1:652611/1‑141 (MQ=255)
                                                           atCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAttt                                                                              <  1:57766/141‑1 (MQ=255)
                                                                  aaTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGt                                                                       <  1:165018/141‑1 (MQ=255)
                                                                   aTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                                                                      <  1:703660/141‑1 (MQ=255)
                                                                     ccAGAGGTGCCGGGTTATTCAGCTCAATAACAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGGATTTAAAAGGTtca                                                                    >  2:128182/1‑141 (MQ=255)
                                                                        gagGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcatca                                                                 >  1:723824/1‑141 (MQ=255)
                                                                           gTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGtt                                                              >  1:373133/1‑141 (MQ=255)
                                                                            tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCCTCAGGTg                                                             >  1:127959/1‑141 (MQ=255)
                                                                             gCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTCTAATGGAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTgg                                                            >  1:332461/1‑141 (MQ=255)
                                                                                gAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAGTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGata                                                         >  1:374898/1‑141 (MQ=255)
                                                                                   ttATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaa                                                      <  1:746380/141‑1 (MQ=255)
                                                                                    tATTCAGCACAAACTCAAATAACTAATGATGATTATAATATAAAACAATTACGAAATAGATATGACATACCAACAAATAGAGCTCCGAAGCTATTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaa                                                     <  2:440408/141‑1 (MQ=14)
                                                                                     aTTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAAAAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaa                                                    >  1:613706/1‑141 (MQ=255)
                                                                                      ttCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaa                                                   <  2:175287/141‑1 (MQ=255)
                                                                                        cAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCGACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaaaa                                                 >  1:521551/1‑141 (MQ=255)
                                                                                          acTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAAtt                                               <  2:587559/140‑1 (MQ=255)
                                                                                           cTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTg                                              <  1:611795/141‑1 (MQ=255)
                                                                                           cTCAATATCAATTAAATAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTg                                              <  2:287410/141‑1 (MQ=255)
                                                                                                tatCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAAttt                                         <  1:497439/141‑1 (MQ=255)
                                                                                                  acAATGAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTAc                                       <  1:642561/140‑1 (MQ=255)
                                                                                                          cTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTag                               <  1:83761/141‑1 (MQ=255)
                                                                                                           tAATGATCATTATAATGTAAAATAATTACGTAAACGGTATTACATACCAACGATTAAAGGGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCACTTGGATATAAAAAAATTGAATTTACTTTTTTaga                              <  2:126457/141‑1 (MQ=17)
                                                                                                            aaTGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTagag                             >  2:97412/1‑141 (MQ=255)
                                                                                                               gatgatTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAAt                          <  2:360824/141‑1 (MQ=255)
                                                                                                                 tgatTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATGTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATaa                        >  2:122227/1‑141 (MQ=255)
                                                                                                                  gatTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATaaa                       <  1:106703/141‑1 (MQ=255)
                                                                                                                         aTGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGaaa                >  1:205167/1‑141 (MQ=255)
                                                                                                                              aaaCAATTACTCAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtt           <  2:520619/141‑1 (MQ=255)
                                                                                                                              aaaCAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGGAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTGAGGAATAAAAATGAAAATAtt           >  1:386174/1‑141 (MQ=255)
                                                                                                                              aaaCAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTAGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAAGTGAATTTACTTTTTTAAAAAAGAAAAATGAAAAAAtt           >  1:92295/1‑141 (MQ=18)
                                                                                                                              aaaCAATTACGTAAAAGATATGACATACCAACAAATAAAACGCCGAAGCTGTAGTTGATAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGACTTAACTTTTTTAGAAAAAAACAAAGACAATCtt           >  2:173821/1‑141 (MQ=17)
                                                                                                                                  aaTTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCGTCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttcct       >  2:572516/1‑141 (MQ=255)
                                                                                                                                    ttACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCCGTTGGATATAAAAAAATTGAATTTACTTTTTTAGGGAATAAAAATGAAAATAtttacttt     >  1:742696/1‑141 (MQ=255)
                                                                                                                                     tACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATAtttactttt    >  1:303917/1‑140 (MQ=255)
                                                                                                                                       cGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATttactttact  >  2:579392/1‑141 (MQ=255)
                                                                                                                                       cGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATttactttact  >  1:758803/1‑141 (MQ=255)
                                                                                                                                       cGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATttactttact  <  2:451786/141‑1 (MQ=255)
                                                                                                                                       cGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATttactttact  <  2:485942/141‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                          
AAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAAATTGAATTTACTTTTTTAGAGAATAAAAATGAAAATATTTACTTTACT  >  CP000730/111423‑111698

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: