Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,795,250 T→C W108R (TGG→CGG)  waaF → ADP‑heptose:LPS heptosyltransferase II

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,795,2500TC93.7% 193.1 / 1.7 63W108R (TGG→CGG) waaFADP‑heptose:LPS heptosyltransferase II
Reads supporting (aligned to +/- strand):  ref base T (2/2);  new base C (27/32);  total (29/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.88e-01

CGCTGGAAATCGGCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCGCACAGCACAAGATCTGCCGC  >  NC_000913/3795116‑3795385
                                                                                                                                      |                                                                                                                                       
cgcTGGAAATCGGCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGgcg                                                                                                                                     <  2:940780/139‑1 (MQ=255)
  cTGGAAATCGGCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGcgcg                                                                                                                                   >  1:671655/1‑139 (MQ=255)
  cTGGAAATCGGCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGcgcg                                                                                                                                   >  2:912004/1‑139 (MQ=255)
            gCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATgcg                                                                                                                         <  2:68437/139‑1 (MQ=255)
             cGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACcggccggc                                                                                                                                      >  1:1006034/1‑125 (MQ=255)
             cGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACcggccggc                                                                                                                                      <  2:1006034/125‑1 (MQ=255)
              gAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCt                                                                                                                       <  2:144990/139‑1 (MQ=255)
                 cgccgcAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACg                                                                                                                    <  2:89024/139‑1 (MQ=255)
                              gTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCcggcgcggcg                                                                                                                                >  1:1444883/1‑114 (MQ=255)
                              gTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCcggcgcggcg                                                                                                                                <  2:1444883/114‑1 (MQ=255)
                                       tGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGt                                                                                              >  1:635926/1‑139 (MQ=255)
                                        gggTGAAAAGCGCTACGACCGCGCCTTCGTTTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTg                                                                                             <  1:1350965/137‑1 (MQ=255)
                                        gCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTg                                                                                             <  2:635926/139‑1 (MQ=255)
                                        gCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTg                                                                                             <  2:263607/139‑1 (MQ=255)
                                         cGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGc                                                                                            >  1:600907/1‑139 (MQ=255)
                                                 gcgcTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATaaa                                                                                    <  2:479022/139‑1 (MQ=255)
                                                       cGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATaa                                                                                     <  1:1663700/132‑1 (MQ=255)
                                                       cGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATaa                                                                                     >  2:1663700/1‑132 (MQ=255)
                                                         aCCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTg                                                                            <  1:912004/139‑1 (MQ=255)
                                                         aCCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTg                                                                            <  1:514215/139‑1 (MQ=255)
                                                             cgcCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGt                                                                                              >  2:1302775/1‑117 (MQ=255)
                                                             cgcCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGt                                                                                              <  1:1302775/117‑1 (MQ=255)
                                                             cgcCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCg                                                                        >  2:316450/1‑139 (MQ=255)
                                                                        tACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGa                                                             <  2:671655/139‑1 (MQ=255)
                                                                              aCTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATg                                                                                                                           >  1:218118/1‑71 (MQ=255)
                                                                              aCTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATg                                                                                                                           <  2:218118/71‑1 (MQ=255)
                                                                               cTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAAtggtg                                                               <  2:667687/130‑1 (MQ=255)
                                                                               cTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAAtggtg                                                               >  1:667687/1‑130 (MQ=255)
                                                                               cTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACg                                                                                                        >  2:1486100/1‑89 (MQ=255)
                                                                               cTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACg                                                                                                        <  1:1486100/89‑1 (MQ=255)
                                                                               cTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCtat                                                      >  2:862768/1‑139 (MQ=255)
                                                                                tCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCTCCGGCCGGCGCGGCGAGATg                                                                                                                           <  1:984328/69‑1 (MQ=255)
                                                                                tCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATg                                                                                                                           >  2:984328/1‑69 (MQ=255)
                                                                                  cTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCGCCGGCCGGCGCGGCgag                                                                                                                              <  2:622790/64‑1 (MQ=255)
                                                                                  cTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCGCCGGCCGGCGCGGCgag                                                                                                                              >  1:622790/1‑64 (MQ=255)
                                                                                    tCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTAc                                                                                                  <  1:280400/90‑1 (MQ=255)
                                                                                    tCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTAc                                                                                                  >  2:280400/1‑90 (MQ=255)
                                                                                       aaTCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTg                                                                                             >  2:115793/1‑92 (MQ=255)
                                                                                       aaTCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTg                                                                                             <  1:115793/92‑1 (MQ=255)
                                                                                       aaTCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCt                                              >  2:1549256/1‑139 (MQ=255)
                                                                                            gCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCt                                         <  1:766226/139‑1 (MQ=255)
                                                                                             cATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCt                                                                                                                       <  2:769382/60‑1 (MQ=255)
                                                                                             cATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCt                                                                                                                       >  1:769382/1‑60 (MQ=255)
                                                                                             cATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCg                                                                                         <  2:1123563/90‑1 (MQ=255)
                                                                                             cATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCg                                                                                         >  1:1123563/1‑90 (MQ=255)
                                                                                             cATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTa                                        >  1:828343/1‑139 (MQ=255)
                                                                                                  gTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACa                                   >  1:1604121/1‑139 (MQ=255)
                                                                                                       tttCTTCGCGGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGc                              <  2:828343/139‑1 (MQ=255)
                                                                                                               cgGGTATTCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATgcg                      <  1:1549256/139‑1 (MQ=255)
                                                                                                                     ttCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCgca                    <  2:1050826/135‑1 (MQ=255)
                                                                                                                     ttCCTCATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCgca                    >  1:1050826/1‑135 (MQ=255)
                                                                                                                          cATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAAtggtg                                                               >  1:388717/1‑87 (MQ=255)
                                                                                                                          cATCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAAtggtg                                                               <  2:388717/87‑1 (MQ=255)
                                                                                                                            tCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGc                                                                               <  2:1369274/69‑1 (MQ=255)
                                                                                                                            tCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGc                                                                               >  1:1369274/1‑69 (MQ=255)
                                                                                                                            tCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATgcg                      >  2:301552/1‑126 (MQ=255)
                                                                                                                            tCGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATgcg                      <  1:301552/126‑1 (MQ=255)
                                                                                                                             cGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATgcg                      >  2:1491934/1‑125 (MQ=255)
                                                                                                                             cGCACCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATgcg                      <  1:1491934/125‑1 (MQ=255)
                                                                                                                                aCCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTgg                                                                           <  2:1348791/69‑1 (MQ=255)
                                                                                                                                aCCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTgg                                                                           >  1:1348791/1‑69 (MQ=255)
                                                                                                                                aCCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTg                                                                            <  2:1065595/68‑1 (MQ=255)
                                                                                                                                aCCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTg                                                                            >  1:1065595/1‑68 (MQ=255)
                                                                                                                                aCCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAAtggtg                                                               <  1:298677/81‑1 (MQ=255)
                                                                                                                                aCCGGCCGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAAtggtg                                                               >  2:298677/1‑81 (MQ=255)
                                                                                                                                  cggccggcGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACg                                                          <  2:1326387/84‑1 (MQ=255)
                                                                                                                                  cggccggcGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACg                                                          >  1:1326387/1‑84 (MQ=255)
                                                                                                                                    gCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCGCACAGCACAAGATCTGCCGc  >  1:975862/1‑138 (MQ=255)
                                                                                                                                    gCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCGCACAGCACAAGATCTGCCGc  <  2:975862/138‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                       
CGCTGGAAATCGGCGAACGCCGCAAACTGGGTCATAGCCTGCGTGAAAAGCGCTACGACCGCGCCTACGTCTTACCCAACTCCTTCAAATCTGCATTAGTGCCTTTCTTCGCGGGTATTCCTCATCGCACCGGCTGGCGCGGCGAGATGCGCTACGGTTTACTCAACGATGTACGCGTGCTCGATAAAGAAGCCTGGCCGCTAATGGTGGAACGCTATATAGCGCTGGCCTATGACAAAGGCATTATGCGCACAGCACAAGATCTGCCGC  >  NC_000913/3795116‑3795385

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑