Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 6,172,167 A→T 8.9% F249Y (TTC→TAC)  atpA ← ATP synthase subunit alpha

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24406,172,1670AT 8.9% 135.3 / 3.6 55F249Y (TTC→TAC) atpAATP synthase subunit alpha
Reads supporting (aligned to +/- strand):  ref base A (29/18);  new base T (3/2);  total (35/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01

ACACGTCGCCTGGGTATGCTTCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGAACGATGTTGGCAACGGTG  >  KT2440/6172039‑6172301
                                                                                                                                |                                                                                                                                      
acacGTCGCCTGGGTATGCTTCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGc                                                                                                                                  >  8:137492/1‑135 (MQ=255)
acacGTCGCCTGGGTATGCTTCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGc                                                                                                                                  >  8:23030/1‑135 (MQ=255)
      cGCCCGGGAATGCTTCACGTCCTGGCGGACGACGGAGCAGCAGGGAGATCTGACGGTAAGCAACAGCCTGTTTAGACAGGTCATCGTAAATGATCAGCGCATCTTCACCGCGGTCACGGAAGTATTCGCCCAttg                                                                                                                            >  8:8929/1‑133 (MQ=255)
       gCCTGGGTATGCTTCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGt                                                                                                                           >  2:276984/1‑135 (MQ=255)
       gCCTGGGTATGCTTCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGt                                                                                                                           >  1:266068/1‑135 (MQ=255)
                   ttCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTa                                                                                                               >  7:183127/1‑135 (MQ=255)
                    tCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTAt                                                                                                              >  2:198565/1‑135 (MQ=255)
                     cgcgTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATg                                                                                                             <  8:133673/135‑1 (MQ=255)
                      acgTCCTGGCGGACGACGGAGCAGCAGGGAGATCTGACGGTAAGCAACAGCCTGTTTAGACAGGTCATCGTAAATGATCAGCGCATCTTCACCGCGGTCACGGAAGTATTCGCCCATTGCGCAACCGGCATacg                                                                                                             <  5:7212/133‑3 (MQ=255)
                       cgTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGgc                                                                                                           <  5:283841/135‑1 (MQ=255)
                       cgTCCTGGCGGACGACGGAGCAGCAGGGAGATCTGACGGTAAGCAACAGCCTGTTTAGACAGGTCATCGTAAATGATCAGCGCATCTTCACCGCGGTCACGGAAGTATTCGCCCATTGCGCAACCGGCATACggt                                                                                                           <  7:8929/135‑2 (MQ=255)
                         tCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGGATGgcgc                                                                                                         >  1:120632/1‑135 (MQ=255)
                          ccTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGGAGTCCTCGCCCATGGTTCCAACGGCGGAAGGCGcc                                                                                                        >  6:166095/1‑135 (MQ=255)
                          ccTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCAGGGTGCAACCCGCGGATGGCGcc                                                                                                        >  2:148958/1‑135 (MQ=255)
                              gtggACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCAAGGTGCAACCCGCGTAAGGCGCCAGGa                                                                                                    >  2:135420/1‑135 (MQ=255)
                                     gcgcAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAg                                                                                             >  4:250135/1‑135 (MQ=255)
                                         agcagcagGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTgcg                                                                                         >  2:236300/1‑135 (MQ=255)
                                               agGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGAt                                                                                   <  7:175893/135‑1 (MQ=255)
                                                   agaTCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGCACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGGGCGGCGGATTcc                                                                                >  3:59085/1‑134 (MQ=255)
                                                   agaTCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGgc                                                                                                           <  8:158350/107‑1 (MQ=255)
                                                   agaTCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGgc                                                                                                           >  7:158350/1‑107 (MQ=255)
                                                   agaTCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTcc                                                                                >  7:49254/1‑134 (MQ=255)
                                                     aTCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGaa                                                                             <  1:85981/135‑1 (MQ=255)
                                                     aTCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGaa                                                                             <  1:210363/135‑1 (MQ=255)
                                                        tGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCa                                                                          >  3:143883/1‑135 (MQ=255)
                                                           cGGTAGGCATCGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGCACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTg                                                                       >  3:296620/1‑135 (MQ=255)
                                                           cGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTg                                                                       >  8:285837/1‑135 (MQ=255)
                                                             ctAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGc                                                                     <  2:81884/134‑1 (MQ=255)
                                                                  cAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGcaacaa                                                                >  7:182019/1‑135 (MQ=255)
                                                                     cGGCCTGCTTGGACAGGTCATCGTAACCGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCATGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCa                                                             <  1:264118/135‑1 (MQ=255)
                                                                     cGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCa                                                             <  8:183127/135‑1 (MQ=255)
                                                                     cGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCa                                                             <  2:120632/135‑1 (MQ=255)
                                                                     cGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCAGAAGCACTGGCAACAACCa                                                             <  7:137492/135‑1 (MQ=255)
                                                                       gcctgcctGGACAGGGAATCGTACACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCTGATTCCGAAGCACTGGCAACAACCACg                                                           <  5:166095/135‑1 (MQ=255)
                                                                       gCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACg                                                           <  1:148958/135‑1 (MQ=255)
                                                                               ggACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTGCGAAGCACTGGCAACCACCACCAATGTGtt                                                   >  6:174501/1‑135 (MQ=255)
                                                                                     gTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAg                                             >  8:89684/1‑135 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGTACTCGCCCAAGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGgc                                          >  1:150260/1‑135 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCa                                                             <  5:160971/116‑1 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCa                                                             >  6:160971/1‑116 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGgc                                          >  7:200564/1‑135 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGgc                                          >  7:250856/1‑135 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGgc                                          >  5:12855/1‑135 (MQ=255)
                                                                                        aTCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGgc                                          >  4:167210/1‑135 (MQ=255)
                                                                                         tCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGgcg                                         >  8:212062/1‑135 (MQ=255)
                                                                                                  aTCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTttct                                >  4:78335/1‑135 (MQ=255)
                                                                                                   tCAGTGCGTCTTCACCGCGGTCGCGGAAGAACGCGCCCATGGTGCAACCGGCGGATGGCGCCCGGAATTGCAGTGCGGCGGATTCCGAAGCCCTGGCAACAACCCCCAGGGGGTTGGCCAGGGCGCCgggtgggt                               >  1:141571/1‑129 (MQ=255)
                                                                                                                aCCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGa                    <  2:37301/133‑1 (MQ=255)
                                                                                                                aCCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGa                    <  8:182019/133‑1 (MQ=255)
                                                                                                                 ccGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGAAc                  <  1:276984/134‑1 (MQ=255)
                                                                                                                    cgGTCGCGGCAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGGTTCTTCCAGCTTGCGTACGATg              >  4:198785/1‑135 (MQ=255)
                                                                                                                    cgGTCGCGGAAGCACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGGTTCGTGCCGCTTGGGAACggag              >  2:133771/1‑132 (MQ=255)
                                                                                                                       tCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCCGCTTGCGAACGATGTTg           >  6:302019/1‑135 (MQ=255)
                                                                                                                        cgcgGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGAACGATGTTgg          <  1:198565/135‑1 (MQ=255)
                                                                                                                         gcgGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATCGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGAACGATGTTgg          >  8:204910/1‑134 (MQ=255)
                                                                                                                                aaCTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGAACGATGTTGGCAACGGTg  <  2:266068/135‑1 (MQ=255)
                                                                                                                                |                                                                                                                                      
ACACGTCGCCTGGGTATGCTTCGCGTCCTGGTGGACGGCGCAGCAGCAGGGAGATCTGACGGTAGGCAACGGCCTGCTTGGACAGGTCATCGTAAACGATCAGTGCGTCTTCACCGCGGTCGCGGAAGAACTCGCCCATGGTGCAACCGGCGTATGGCGCCAGGAATTGCAGTGCGGCGGATTCCGAAGCACTGGCAACAACCACGATGGTGTTGGCCAGGGCGCCGGTTTCTTCCAGCTTGCGAACGATGTTGGCAACGGTG  >  KT2440/6172039‑6172301

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑