Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,451,024 C→T 46.4% Q70* (CAG→TAG)  PP_1270 → LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,451,0240CT46.4% 9.8 / 66.7 56Q70* (CAG→TAG) PP_1270LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (15/15);  new base T (15/11);  total (30/26)
Fisher's exact test for biased strand distribution p-value = 6.01e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.46e-01

GTGGGCGCAGCGCAGCGCATGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGGCGCCCAGCTGCTGCGCATGA  >  NC_002947/1450880‑1451165
                                                                                                                                                |                                                                                                                                              
gtggGCGCAGCGCAGCGCATGACCCGGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGt                                                                                                                                            <  5:310560/149‑1 (MQ=255)
     gtgggcgcagcgcaTGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGCTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCAt                                                                                                                                        <  2:242388/144‑1 (MQ=255)
          cgcagcgcaTGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCCCGGCCtg                                                                                                                                  >  4:224831/1‑149 (MQ=255)
           gcagcgcaTGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCtgg                                                                                                                                 >  2:251629/1‑149 (MQ=255)
            cagcgcaTGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCtggt                                                                                                                                <  8:143951/149‑1 (MQ=255)
             agcgcaTGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCtggtg                                                                                                                               <  6:35355/149‑1 (MQ=255)
                        cTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGCTCCACCAGGccat                                                                                                                    <  3:297886/149‑3 (MQ=255)
                         tGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCtggtg                                                                                                                               <  6:231220/137‑1 (MQ=255)
                         tGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCtggtg                                                                                                                               >  5:231220/1‑137 (MQ=255)
                           aGCCGGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGAGCCGATCCTGGTGCGCGCCGGCCTTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCCCGGCCTGCTCCACCAGGccatgc                                                                                                                  <  6:209452/148‑5 (MQ=255)
                             cccGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAgg                                                                                                               <  1:251629/149‑1 (MQ=255)
                                    gcCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCg                                                                                                        >  2:98144/1‑149 (MQ=255)
                                       aTGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAg                                                                                                     <  2:840/149‑1 (MQ=255)
                                        tGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGc                                                                                                    >  5:248989/1‑149 (MQ=255)
                                         gAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGcc                                                                                                   >  2:34457/1‑149 (MQ=255)
                                              ggACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCtg                                                                                                                                  >  2:273368/1‑113 (MQ=255)
                                              ggACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCtg                                                                                                                                  <  1:273368/113‑1 (MQ=255)
                                              ggACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGAc                                                                                              >  3:2914/1‑149 (MQ=255)
                                                  aTTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTACCGAACCCGTGACGATg                                                                                          >  6:61400/1‑149 (MQ=255)
                                                       ggCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGAc                                                                                     <  6:248989/149‑1 (MQ=255)
                                                                gcgATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGaa                                                                             >  3:271629/1‑148 (MQ=255)
                                                                  gATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCt                                                                          >  8:254128/1‑149 (MQ=255)
                                                                           ggTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCggg                                                                                                                   <  1:27502/99‑1 (MQ=255)
                                                                           ggTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCggg                                                                                                                   >  2:27502/1‑99 (MQ=255)
                                                                               aCCCGTTCCTGGTGCGGGCCGGCCGTTGCCTTGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGTGCATGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCtt                                                             <  5:61400/148‑1 (MQ=255)
                                                                               aCCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGACCCTGGACCGTG‑CCtt                                                             >  2:144464/1‑148 (MQ=255)
                                                                               aCCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCtt                                                             >  7:92323/1‑148 (MQ=255)
                                                                                 ccGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCaa                                                          >  1:7712/1‑149 (MQ=255)
                                                                                    aTCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACAt                                                       >  7:294931/1‑149 (MQ=255)
                                                                                       cTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCg                                                    >  3:152163/1‑149 (MQ=255)
                                                                                        tGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCg                                                    >  2:44258/1‑148 (MQ=255)
                                                                                                  cggccgTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGagt                                         >  8:302315/1‑147 (MQ=255)
                                                                                                  cggccgTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGAtt                                         <  8:176967/149‑1 (MQ=255)
                                                                                                   ggccgTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACATGGACCGTG‑CCTTCAACATCCGCACCAATGAttt                                        <  4:271629/149‑1 (MQ=255)
                                                                                                   ggccgTGGCCGGGTGCCGACGCCCTGTGCGTTGGCCGTGCGCGAGTTGGTGCAGGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCGGCAGCCGGGACGTTGTCGACCTGGTGCACCTGGACCGGG‑CCTTCAAGATCCGCACCATTGAttt                                        <  4:142415/149‑1 (MQ=255)
                                                                                                    gccgTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGGAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTg                                       <  1:98144/149‑1 (MQ=255)
                                                                                                     ccgTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGt                                      >  6:75690/1‑149 (MQ=255)
                                                                                                      cgTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGtt                                     <  8:92323/149‑1 (MQ=255)
                                                                                                         ggCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCAt                                  >  4:233769/1‑149 (MQ=255)
                                                                                                           ccTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGt                                      >  4:36767/1‑143 (MQ=255)
                                                                                                           ccTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGt                                      <  3:36767/143‑1 (MQ=255)
                                                                                                           ccTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTGACCTTCAACATCCGCACCAATGATTTGTTCAtt                                 <  1:34457/149‑1 (MQ=255)
                                                                                                            cTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGa                                                                                               >  5:290087/1‑86 (MQ=255)
                                                                                                            cTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGa                                                                                               <  6:290087/86‑1 (MQ=255)
                                                                                                               gTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTc                                                            <  1:232682/117‑1 (MQ=255)
                                                                                                               gTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTc                                                            >  2:232682/1‑117 (MQ=255)
                                                                                                                  ccTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTa                         >  8:31940/1‑149 (MQ=255)
                                                                                                                   cTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGt                                      <  2:269678/135‑1 (MQ=255)
                                                                                                                   cTACGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTAc                        >  3:39442/1‑149 (MQ=255)
                                                                                                                   cTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTAc                        >  2:50265/1‑149 (MQ=255)
                                                                                                                      cGCCCCGTGCGTTGGCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACgg                      <  7:31940/148‑1 (MQ=255)
                                                                                                                      cGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGgc                     <  5:75690/149‑1 (MQ=255)
                                                                                                                                    gCCCTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGGCGCCCAGCTGCTgcg       >  3:213852/1‑149 (MQ=255)
                                                                                                                                     cccTGCGCGAGTAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGGCGCCCAGCTGCTgcg       >  7:128580/1‑148 (MQ=255)
                                                                                                                                     cccTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGGCGCCCAGCTGCTgcg       >  7:72841/1‑148 (MQ=255)
                                                                                                                                          cgcgAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGGCGCCCAGCTGCTGCGCatga  <  8:72841/148‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                              
GTGGGCGCAGCGCAGCGCATGAACCTGAGCCCGGCGGCCATGAGCCGGACATTGGGGCGTATCCGCGATGCCTTGGGTGACCCGATCCTGGTGCGCGCCGGCCGTGGCCTGGTGCCTACGCCCCGTGCGTTGGCCCTGCGCGAGCAGGTGCATGGCCTGGTGGAGCAGGCCGGGCAGGTGTTCCGCAGCCGTGACGATGTCGACCTGGTGAACCTGGACCGTG‑CCTTCAACATCCGCACCAATGATTTGTTCATTGCCCTTTACGGCGCCCAGCTGCTGCGCATGA  >  NC_002947/1450880‑1451165

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑