Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,479,566 C→A 7.8% S180I (AGC→ATC)  PP_2173 ← AraC family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,479,5660CA 7.8% 158.5 / 2.2 51S180I (AGC→ATC) PP_2173AraC family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (25/22);  new base A (2/2);  total (27/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.68e-01

ACAGCGCCCCGCCGGTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGTGATACTCCTG  >  NC_002947/2479421‑2479715
                                                                                                                                                 |                                                                                                                                                     
acaGCGCCCCGCCGGTATAACCCGTTCATGCACGCCGAAAACGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGc                                                                                                                                                   >  2:686239/1‑150 (MQ=255)
    cgcCCCGCCGGTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGAAGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCcaca                                                                                                                                               <  1:733544/150‑1 (MQ=255)
     gcCCCGCCGGTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAg                                                                                                                                              <  2:58802/150‑1 (MQ=255)
          gcgggTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGAc                                                                                                                                         >  1:1284175/4‑150 (MQ=255)
              gTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGATGGCCACAGGCGACTGGc                                                                                                                                     >  1:21518/1‑150 (MQ=255)
              gTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGATGGCCACAGGCGACTGGc                                                                                                                                     >  1:663632/1‑150 (MQ=255)
                  aaCCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCt                                                                                                                                 <  1:471234/150‑1 (MQ=255)
                   aCCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCtg                                                                                                                                >  1:310673/1‑150 (MQ=255)
                    cccGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCg                                                                                                                                   <  2:963224/146‑1 (MQ=255)
                    cccGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCg                                                                                                                                   >  1:963224/1‑146 (MQ=255)
                     ccGTTCATGCACGCCGAAATCGTTGGGATGGACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCtgtg                                                                                                                              >  1:874580/1‑150 (MQ=255)
                                 gCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTg                                                                                                                  >  2:933418/1‑150 (MQ=255)
                                    gAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCg                                                                                                               >  1:1037536/1‑150 (MQ=255)
                                               gCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGa                                                                                                    >  2:981141/1‑150 (MQ=255)
                                               gCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGGTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGa                                                                                                    >  2:156749/1‑150 (MQ=255)
                                                  gCACTGCCTCGTCTATCTCTTTGAAGACGCCAAAGCGAAAGGGGTGGGCCCGGGTGGTGTCGGGGTTGTCGTACGGGATACCGAAGGGACGGGTGCTGGCCACAGGCGACTGGCCGCTGTGCAGGCGCCATTGGCGAAAACGCGcgccgc                                                                                                 <  2:1083155/150‑1 (MQ=255)
                                                  gCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGAcca                                                                                                 <  1:686239/150‑3 (MQ=255)
                                                         cTCGTATATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTGGTCGTAGTGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCAGCTGTGCATGCGCCATTGGCGAAAACGGGCGACGCTTTCGCt                                                                                          <  2:347740/150‑1 (MQ=255)
                                                              cTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCa                                                                                     >  1:613718/1‑150 (MQ=255)
                                                                 tctcGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGc                                                                                  >  1:164533/1‑150 (MQ=255)
                                                                     gccgcACACTGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCggg                                                                              >  1:1006988/1‑150 (MQ=255)
                                                                          acacGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGcc                                                                         >  2:83176/1‑150 (MQ=255)
                                                                          acacGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGcc                                                                         >  1:373058/1‑150 (MQ=255)
                                                                              ggCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTg                                                                     <  2:64826/150‑1 (MQ=255)
                                                                                cAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGTGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCtgt                                                                                                                               <  1:553989/90‑1 (MQ=255)
                                                                                cAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCtgt                                                                                                                               >  2:553989/1‑90 (MQ=255)
                                                                                cAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTg                                                                     <  1:115584/148‑1 (MQ=255)
                                                                                cAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTg                                                                     >  2:115584/1‑148 (MQ=255)
                                                                                cAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGgt                                                                   <  2:1207777/150‑1 (MQ=255)
                                                                                 aaaGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGgtg                                                                  >  2:385200/1‑150 (MQ=255)
                                                                                    gCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTc                                                               <  2:1006988/150‑1 (MQ=255)
                                                                                      gAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGa                                                             <  1:385200/150‑1 (MQ=255)
                                                                                      gAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGa                                                             <  1:742053/150‑1 (MQ=255)
                                                                                       aaaGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCggg                                                                              <  1:404155/132‑1 (MQ=255)
                                                                                       aaaGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCggg                                                                              >  2:404155/1‑132 (MQ=255)
                                                                                              tGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGcc                                                     >  2:127489/1‑150 (MQ=255)
                                                                                                    ggggTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGATGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTgg                                               <  2:21518/150‑1 (MQ=255)
                                                                                                    ggggTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGATGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTgg                                               <  2:663632/150‑1 (MQ=255)
                                                                                                                  gTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAAtt                                 <  1:83176/150‑1 (MQ=255)
                                                                                                                     gTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGTTTTCTGCGTGCTTACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCCGCCACGTGGGTTTCGGCGAAATTCAc                              >  1:223103/1‑150 (MQ=255)
                                                                                                                      tCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACg                             >  1:621190/1‑150 (MQ=255)
                                                                                                                             ggATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCAGGGCGGTCCTTGGTGTTCGAGCGGGGTGACGTGGGTTTCGGCGAAATTCACGATACGGa                      >  2:621913/1‑150 (MQ=255)
                                                                                                                              gATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGAt                     >  2:187343/1‑150 (MQ=255)
                                                                                                                               aTACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATc                    <  1:1211933/150‑1 (MQ=255)
                                                                                                                                   cGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCa                >  1:1051848/1‑150 (MQ=255)
                                                                                                                                      aGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGaaa                                   >  1:476448/1‑128 (MQ=255)
                                                                                                                                      aGGTACGGCCGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGaaa                                   <  2:476448/128‑1 (MQ=255)
                                                                                                                                       ggTCCGGCGGCTGCCCACAGGCGACTGGCCGCGGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGt            <  2:1037536/150‑1 (MQ=255)
                                                                                                                                       ggTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGt            <  1:933418/150‑1 (MQ=255)
                                                                                                                                        gTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGTg           <  1:981141/150‑1 (MQ=255)
                                                                                                                                         tACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGTGa          <  1:1155217/150‑1 (MQ=255)
                                                                                                                                                 ctgGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGAGAGACGCGTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGTGATACTCCTg  <  2:874580/150‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                     
ACAGCGCCCCGCCGGTATAACCCGTTCATGCACGCCGAAATCGTTGGGCTGCACTGCCTCGTCTATCTCGCCGCACACGGCAAAGCGAAAGGCGTGGGCCGGGGTGGTGTCGGGGTTGTCGTAGGGGATACCGAAGGTACGGCTGCTGGCCACAGGCGACTGGCCGCTGTGCATGCGCCATTGGCGAAAACGCGCGACGCTTTCGCTGACCAGGCCGGGCGGCCCTTGGTGTTCGAGCGCGGCCACGTGGGTTTCGGCGAAATTCACGATACGGATCTGCATGGTGATACTCCTG  >  NC_002947/2479421‑2479715

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑