Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,338,681 A→G 8.0% R42G (AGA→GGA)  USA300HOU_1241 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,338,6810AG 8.0% 170.5 / 5.2 62R42G (AGA→GGA) USA300HOU_1241hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (27/30);  new base G (2/3);  total (29/33)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01

TTCGCCTCATCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCAAACTAGTGACTGAGTGGGTGCTTT  >  CP000730/1338541‑1338818
                                                                                                                                            |                                                                                                                                         
ttCGCCTCATCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTa                                                                                                                                           <  1:423430/141‑1 (MQ=255)
     cTCATCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGagaa                                                                                                                                      >  2:980116/1‑141 (MQ=255)
     cTCATCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGagaa                                                                                                                                      <  2:397479/141‑1 (MQ=255)
     cTCATCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGagaa                                                                                                                                      >  2:612078/1‑141 (MQ=255)
        aTCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAAAATTGATAGAAAACAAAGAGATATCAAGTTATCAAATTAATAAATATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTGGggaaaga                                                                                                                                   >  2:547392/1‑141 (MQ=255)
           tAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAAAATTGATAGAAAACAAAGAGATATCAAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTGGGGAAagaaga                                                                                                                                <  1:625598/141‑1 (MQ=255)
               ttATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAg                                                                                                                            <  1:879798/141‑1 (MQ=255)
                tATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGAGACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGa                                                                                                                           <  2:1065514/141‑1 (MQ=255)
                  tGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGaaa                                                                                                                         >  2:882145/1‑141 (MQ=255)
                       tGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTa                                                                                                                    >  2:428965/1‑141 (MQ=255)
                          tATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGc                                                                                                                 <  2:580040/141‑1 (MQ=255)
                          tATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGc                                                                                                                 <  1:564536/141‑1 (MQ=255)
                          tATGATGAAATATTCAATACAATCAAAAAATTGATAGAAAACAAAGAGATATCAAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTGGGGAAAGAAGAATAGAAAATTTAAGc                                                                                                                 <  1:492352/141‑1 (MQ=255)
                            tgatgaAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCtt                                                                                                               <  2:18072/141‑1 (MQ=255)
                                   atatTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATCTAAGCTTAAAGAAt                                                                                                        >  1:13461/1‑141 (MQ=255)
                                     atTCAATACAATCAACGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTCACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATGTAAGCTTAAAGAATGc                                                                                                      >  2:866538/1‑141 (MQ=255)
                                     atTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGc                                                                                                      >  2:903549/1‑141 (MQ=255)
                                     atTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGc                                                                                                      <  2:965820/141‑1 (MQ=255)
                                       tCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCaa                                                                                                    >  2:696708/1‑141 (MQ=255)
                                        cAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCaaa                                                                                                   >  2:476401/1‑141 (MQ=255)
                                           tACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGAt                                                                                                <  1:1021219/141‑1 (MQ=255)
                                           tACAATCAAAAAATTGATAGAAAACAAAGAGATATCAAGTTATCAAATTAATAAATATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTGGGGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGAt                                                                                                <  1:547392/141‑1 (MQ=255)
                                                  aaaGAATTGATAGAAAACAAAGAGATATCGTGTTATCAATTTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTatat                                                                                         >  2:381837/1‑141 (MQ=255)
                                                       aTTGATAGAAAACAAGGCGATATCGAGTTCTCAAGTTAATAAAGATACTGGGATAAGTTACGGTAATATCAAGGCTCTGCGCCGTAGAGAAAGAAGAACAGAAAACGTAAGCGTAAAGAATGCAAACATCTTATATGAata                                                                                    <  2:512548/141‑1 (MQ=255)
                                                       aTTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAata                                                                                    >  2:741532/1‑141 (MQ=255)
                                                       aTTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAata                                                                                    <  2:595754/141‑1 (MQ=255)
                                                         tGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACCGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAGAGATCTTATATGAATATg                                                                                  >  2:246894/1‑141 (MQ=255)
                                                             aGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGaa                                                                              <  2:821050/141‑1 (MQ=255)
                                                               aaaaCAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGaaaa                                                                            >  2:1070622/1‑141 (MQ=255)
                                                                  aCAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAgg                                                                         <  1:1024088/141‑1 (MQ=255)
                                                                  aCAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAgg                                                                         >  1:1047263/1‑141 (MQ=255)
                                                                   cAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATTCAAAGATCTTATAAGAAAAAGAGAAAAAGGt                                                                        <  2:917622/141‑1 (MQ=255)
                                                                      agagATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTAtt                                                                     >  1:1056752/1‑141 (MQ=255)
                                                                      agagATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTAtt                                                                     >  2:784967/1‑141 (MQ=255)
                                                                      agagATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTAAGGTAATATTAAAGCTATGAGACATAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTAtt                                                                     <  1:213035/141‑1 (MQ=255)
                                                                          atatCGAGTTATCAAAATAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTAAATGAAAAAAAAAAAAAGGTATTGTaa                                                                 <  2:331375/141‑1 (MQ=255)
                                                                             tCGAGTTATCAAATTAATAAAGATACTGGGATAAGATACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAatat                                                              <  2:84622/141‑1 (MQ=255)
                                                                              cGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAAtata                                                             >  1:951098/1‑141 (MQ=255)
                                                                                   aaTCAAAGTAATAAGTATACAGAGAAAAGTTACGGTAAAATTAATGCTATGCGCCGTATAGAAAAAAGAATAGAAAATTTAAGCTTAAAGAATGCACAGATCTTATATAAAAAAAAAAAAAAGGTATTGTAATATAAGCAt                                                        <  2:692445/140‑1 (MQ=255)
                                                                                     tCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTg                                                      <  1:199368/141‑1 (MQ=255)
                                                                                     tCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTg                                                      >  1:240831/1‑141 (MQ=255)
                                                                                      cAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGa                                                     >  1:700307/1‑141 (MQ=255)
                                                                                       aaaTTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAg                                                    >  1:335586/1‑141 (MQ=255)
                                                                                         aTTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGtt                                                  >  1:753085/1‑141 (MQ=255)
                                                                                         aTTAATAAAGATACTGGGATAAGTTAAGGTAATATAAATGGTATGCGCAGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTAAAAAAAAAAAAAAAAAAGGTATTGTAATATAAGCATTGAGtt                                                  <  2:338117/141‑1 (MQ=255)
                                                                                           taataaAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCa                                                <  1:889195/141‑1 (MQ=255)
                                                                                             ataaAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAAt                                              >  2:241841/1‑141 (MQ=255)
                                                                                              taaAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATAAAAAAAAAAAAAAAAGGTATTGTAATATAAGCATTGAGTTCAATa                                             <  2:59878/141‑1 (MQ=255)
                                                                                                 aGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGc                                          <  1:726701/141‑1 (MQ=255)
                                                                                                   aTACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCAt                                        <  2:802645/141‑1 (MQ=255)
                                                                                                    tACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATa                                       <  1:711632/141‑1 (MQ=255)
                                                                                                      cTGGGATAAGTTACGGNAATATTAATGCTNTGCGCCGTGGGGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACa                                     >  1:865535/1‑141 (MQ=255)
                                                                                                               gTTACGGTAATTTTATTGCTACGCGCCGTAGAGAAAGAAAAATAGAAAATATAAGCTTAAAGAATGCAAAGATCTTTTATGAATTAGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGcc                            <  2:889572/141‑1 (MQ=255)
                                                                                                                 tACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCa                          <  1:714146/141‑1 (MQ=255)
                                                                                                                 tACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCa                          >  2:683207/1‑141 (MQ=255)
                                                                                                                 tACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCa                          <  2:1005113/141‑1 (MQ=255)
                                                                                                                  aCGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCaa                         >  1:479309/1‑141 (MQ=255)
                                                                                                                           ttAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTatat                                                                                         >  2:873527/1‑68 (MQ=255)
                                                                                                                           ttAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTatat                                                                                         <  1:873527/68‑1 (MQ=255)
                                                                                                                             aaTGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCAAACTAGTGACTg              >  1:891404/1‑141 (MQ=255)
                                                                                                                               tGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCAAACTAGTGACTGAg            <  1:412513/141‑1 (MQ=255)
                                                                                                                               tGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGAGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCAAACTAGTGACTGAg            <  2:458776/141‑1 (MQ=255)
                                                                                                                                         cGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCAAACTAGTGACTGAGTGGGTGCttt  >  2:56487/1‑141 (MQ=255)
                                                                                                                                            |                                                                                                                                         
TTCGCCTCATCTAATTTATGAATTGCTATGATGAAATATTCAATACAATCAAAGAATTGATAGAAAACAAAGAGATATCGAGTTATCAAATTAATAAAGATACTGGGATAAGTTACGGTAATATTAATGCTATGCGCCGTAGAGAAAGAAGAATAGAAAATTTAAGCTTAAAGAATGCAAAGATCTTATATGAATATGCGAAAAAGGTATTGTAATATAAGCATTGAGTTCAATAGGCATACAATAACTGCCCAAACTAGTGACTGAGTGGGTGCTTT  >  CP000730/1338541‑1338818

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑