Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 3,244,507 T→G 24.8% L97R (CTG→CGG)  ureF → Urease accessory protein UreF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24403,244,5070TG24.8% 72.9 / 2.7 57L97R (CTG→CGG) ureFUrease accessory protein UreF
Reads supporting (aligned to +/- strand):  ref base T (20/20);  new base G (6/8);  total (29/28)
Fisher's exact test for biased strand distribution p-value = 7.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACGACACATTGGCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCCTGGCTGGCTGCACACTGGG  >  KT2440/3244375‑3244638
                                                                                                                                    |                                                                                                                                   
aCGACACATTGGCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGCAACCCCCGCGCTGCGCCTg                                                                                                                                    >  6:200127/1‑134 (MQ=255)
 cGACACATTGGCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTgg                                                                                                                                   <  4:177706/134‑1 (MQ=255)
         tGGCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAAcagc                                                                                                                          >  2:5853/1‑135 (MQ=255)
         tGGCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAAcag                                                                                                                           >  7:62788/1‑134 (MQ=255)
          ggCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTGTTGCTGGCCAACCCCCCAACCCCCCACCAGCGCCCGGAAAAAccccc                                                                                                                         >  6:39338/1‑131 (MQ=255)
           gcctgcctCGACGGGCCGGTGCTGGCGCGGCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAAcagca                                                                                                                         <  3:42438/134‑1 (MQ=255)
            cctgcctCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAgcg                                                                                                                      >  8:441874/1‑136 (MQ=255)
              tgcctCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTTCTGGCCAAACGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGcgcg                                                                                                                    >  8:34955/1‑136 (MQ=255)
               ccctCGACTGGCCGGGGCTGGCGCGCCTGTACCCCGCGTGCCTGGCTAACGACGCCGAATCGATCGGCCACTGGAGTCGGTGCTTGCTGGCCAACCGCGAAACCGGCGAGCTGCGCCTGGAAGAACAGCAGcgcg                                                                                                                    <  1:434086/134‑1 (MQ=255)
                 ctCGACTGGCCGGTGCTGGCGCGGCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGCGGCGGTTCTTGCGGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGcgcg                                                                                                                    <  4:113182/133‑1 (MQ=255)
                   cGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTTCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGCTGGGCAACCGCGCAACCGCCCCGCAGCGCCTGGAAGAACAGCAGCGCGgcgcc                                                                                                               >  7:429004/1‑135 (MQ=255)
                   cGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTTCTGGGCAACCCCGAAACCCCCGACCAGCCCCGGGGAGAACAACACCGCGgcgc                                                                                                                >  1:397081/1‑135 (MQ=255)
                   cGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCT‑AAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGCTGGCCCACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGCCGCAg                                                                                                              >  8:131291/1‑136 (MQ=255)
                            ggTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGCTGGCCACCCGCGAAACCGCCGAGCAGCGCCAGGCAGAACAGCCGCCCGGCGCAGCGCTGgc                                                                                                       >  4:381644/1‑135 (MQ=255)
                             gTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCCCTGGAGTCGGGTGTTGCTGGCCAACCGCGCAACCCCCCCGCGGCGGCGGGGAGAACAGCCGCCCGGCGCCGCGCGGgcgg                                                                                                     >  8:162404/1‑135 (MQ=255)
                             gTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGCGCTGCGCCGGGAAGCACACCAGCGCGGCGCCGCGCTGgcgc                                                                                                     >  8:260358/1‑136 (MQ=255)
                             gTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGGTGGCCCACCCCGAAACCGCCGCCCAGCGCCGGGCAGCACAGCCGCGCGGCGCAGCCCGGgcg                                                                                                      >  6:134210/1‑135 (MQ=255)
                             gTGCTGGCGCGTATGTACCACGCCAGCCAGGCTAAAGACGCCGAAGCGGTCGGCCTCAGGAGTCGGGTCTTGCTGGCCAACCGCGCAACCCCCCCGCGGCGCCCGGAAGCACAGCCCCGCGGCGCAGCCCTcgcg                                                                                                      >  6:134031/1‑135 (MQ=255)
                                cTGGCGCGGCGGAACCCCGCCGGCCAGGCTAACCACGCCGAAGCGTTCGGCCACTGGCGGCGGTTCTTGCTGGCCAACCGCGAACCCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCgg                                                                                                   <  2:402568/135‑1 (MQ=255)
                                           gTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACgg                                                                                        >  3:163062/1‑135 (MQ=255)
                                           gTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGc                                                                                       >  8:349502/1‑136 (MQ=255)
                                             aCCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACgg                                                                                        <  6:446471/133‑1 (MQ=255)
                                                    cTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGCGCTGCGCCTGGAAGAACAGCCGCGCGGCGCCGCGCTGGCGCGGTTGCTCGACGGCTGGCAACt                                                                               >  3:61036/1‑135 (MQ=255)
                                                    cTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGCGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCGGGCGCGGTTGCTCGACGGCGGGCAACt                                                                               >  3:269270/1‑135 (MQ=255)
                                                    cTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACt                                                                               >  3:192771/1‑135 (MQ=255)
                                                    cTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTg                                                                              >  7:120626/1‑136 (MQ=255)
                                                    cTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAAACGCGAAACCGCCGCGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCCACt                                                                               >  1:44029/1‑135 (MQ=255)
                                                     tGCCCGGCTAACCACGCCGACGCGTTGGGCCACTGGCGTCGGTTCTGGCTGGCCAACCGCGAACCCGCCGAGCGGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTg                                                                              <  5:39338/135‑1 (MQ=255)
                                                     tGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTg                                                                              <  1:82597/135‑1 (MQ=255)
                                                      gCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGCGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTgg                                                                             >  2:259346/1‑135 (MQ=255)
                                                          ggCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAg                                                                        <  8:62788/136‑1 (MQ=255)
                                                           gCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGGTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAg                                                                        <  6:209437/135‑1 (MQ=255)
                                                               aaGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCCGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCCACTGGGCCCGGccc                                                                    >  4:257609/1‑133 (MQ=255)
                                                                   cGCCTAAGCGTGCGCCCACTGGCGGCGGTGATTGCGGCCCAACCGCCAAACCGCCGAGCGGCGCCGGGAACAACAGCCGCGCGGCGCCGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGcc                                                               <  8:206281/136‑1 (MQ=255)
                                                                        aaGCGTTCGGCCACTGGAGTCGGGTCTTTGTGGCCAACCGCGAAACCGCCCCGCTGCGCCGGGAAGAAAAGCAGCCCCGCGCCGCGCTGGCGCGGTTGCTCGACGGCTGGCCACAGGGGCCGGCACCCGCCGGgc                                                           >  1:435817/1‑135 (MQ=255)
                                                                         cgcgggcGGCCAGGGGAGGCGGTGCTTGCTGGCCACCCGCGAACCCGCCGAGCTGCGCCGGGAACACCCGCAGCGCGGCGCAGCGCGGGCGCGGTTGCTCGACGGCTGGCAACTGGCCCAGGCACCGGCCTGgcg                                                          <  1:129444/129‑1 (MQ=255)
                                                                         aGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGCGCTGCGCCGGGAAGAACAGCCGCGCGGCGCCGCGCTGGCGCGGTTGCTCGACGGCGGGCCCCTGGGCCAGGCACCCGCCTGgcg                                                          >  1:325669/1‑135 (MQ=255)
                                                                                ggCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGc                                                   >  4:102136/1‑135 (MQ=255)
                                                                                   cACTGGAGGCGGTTCTTGCTGGCCAACCGCTAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCtt                                                <  4:329827/135‑1 (MQ=255)
                                                                                    aCTGGAGTCGGTTCTTGCGGGCCAACCGCTACCCCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTg                                               <  5:228771/135‑1 (MQ=255)
                                                                                     cTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGa                                              >  5:427446/1‑135 (MQ=255)
                                                                                        gAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCGGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTg                                          <  7:441874/136‑1 (MQ=255)
                                                                                                tCTTGCCGCCCACCCGCGAACCCCCCGAGCGGCGCCTGCAAGAACCGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCACCTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGt                                   <  5:93909/135‑1 (MQ=255)
                                                                                                gctggCTGCCCAACCGCCAAACCCCCGAGCGGCGCCTGGAACAACAGCAGCGCGGCGCAGCGCGGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGt                                   <  2:397081/131‑1 (MQ=255)
                                                                                                 cTTGCGGGCCACCCGCTAAACCGCCGAGGTGCGCCTGCAAGAAGCGCTGGGCGGCGGAGCGCTGGCGCGGTTGCGCGAGGGCGGGCAACTGGGCCAGGCACGGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGtt                                  <  6:223478/135‑1 (MQ=255)
                                                                                                     cTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTTACTCAGTTGGGCg                             >  8:85538/1‑136 (MQ=255)
                                                                                                            aCCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCATGAGCTGACTCAGTTGGGCGGTATgg                       >  5:125502/1‑135 (MQ=255)
                                                                                                              cgcgACCCCGCCGCGCGGCGCCTGGACGACCAGCAGCGCGGCGCAGCGCGGGCGCGGTTGCGCGCCGGCTGGCAACTGGGCCAGGCACCGGCCGGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCct                    <  8:120626/136‑1 (MQ=255)
                                                                                                               gcgAAACCGCCGACCTGCCCCGGGACCACCAGCAGCGCGGCGCAGCGCGGGCGCGGTTGCGCGACGGCTGGCAACTGGGCCAGGCACCGGCCGGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCct                    <  6:386685/135‑1 (MQ=255)
                                                                                                               gccaccccgcccCGCGGCGCGGGGACGACCCGCGGCGGGGCGCCGCGCGGGCGCGGGGGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTGGAGCTGACTCAGTTGGGCGGTATGGCct                    <  5:49328/129‑1 (MQ=255)
                                                                                                                   acccgccgAGGTGCGCGGGGAAGAACCGCGGCGGGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCctggctg               <  8:299122/134‑1 (MQ=255)
                                                                                                                    cccgccgCGCGGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCGGGCGCGGTTGCTCGACGGCTGGCAACGGGGCCAGGCACCGGCCGGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCctggctg               <  3:220229/134‑1 (MQ=255)
                                                                                                                    cccgccgAGCTCCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTGGCTCGACGGCGGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCctggctg               <  4:269270/134‑1 (MQ=255)
                                                                                                                    aCCGCCGAGCGGCGCCTGGAAGAACAGCAGCGCGGCGCCGCGCGGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCctggctg               <  4:192771/135‑1 (MQ=255)
                                                                                                                         ggcgcggcgcCGGGACGAACTGCTGCGGGGCGCCGCGGGGGGGCGGTTGCGCGCCGGCGGGCAAGTGGGCCCGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCCTGGCTGGCTGc          <  5:134210/129‑1 (MQ=255)
                                                                                                                             cggcgcCTGGAAGCCCCGCCGGGGGGCGCCGCGCGGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCGGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCCTGGCTGGCTGCACACt     <  8:302919/134‑1 (MQ=255)
                                                                                                                                 gcCGGGTAGACCCGCCGCGCGGCGCAGGGCTGGGGCGGTTGCGGGCCGGCGGGCAAGTGGGCCCGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCCTGGCTGGCTGCACACTggg  <  1:349962/135‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                   
ACGACACATTGGCCTGCCTCGACTGGCCGGTGCTGGCGCGTCTGTACCACGCCTGCCAGGCTAAAGACGCCGAAGCGTTCGGCCACTGGAGTCGGTTCTTGCTGGCCAACCGCGAAACCGCCGAGCTGCGCCTGGAAGAACAGCAGCGCGGCGCAGCGCTGGCGCGGTTGCTCGACGGCTGGCAACTGGGCCAGGCACCGGCCTGGCGCGCCAGCCTTGAGCTGACTCAGTTGGGCGGTATGGCCTGGCTGGCTGCACACTGGG  >  KT2440/3244375‑3244638

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑