Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 1,653,788 G→A 37.9% G211D (GGC→GAC)  U712_08495 → GTP‑sensing transcriptional pleiotropic repressor CodY

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068811,653,7880GA37.9% 53.1 / 58.7 58G211D (GGC→GAC) U712_08495GTP‑sensing transcriptional pleiotropic repressor CodY
Reads supporting (aligned to +/- strand):  ref base G (13/23);  new base A (6/16);  total (19/39)
Fisher's exact test for biased strand distribution p-value = 5.72e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.75e-01

GAAGCAAAGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGA  >  CP006881/1653656‑1653917
                                                                                                                                    |                                                                                                                                 
gaagcaaAGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTAc                                                                                                                             <  7:233408/139‑1 (MQ=255)
   gcaaAGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCg                                                                                                                          <  2:246564/139‑1 (MQ=255)
   gcaaAGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCg                                                                                                                          <  3:70633/139‑1 (MQ=255)
     aaaGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGtt                                                                                                                        <  5:157511/139‑1 (MQ=255)
     aaaGCTGTCGTACAAATGGCTAGCAGCTCGCGTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGtt                                                                                                                        <  7:161135/139‑1 (MQ=255)
       aGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGGGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCt                                                                                                                      >  1:199618/1‑139 (MQ=255)
                 cAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATtgtg                                                                                                             >  7:160139/1‑138 (MQ=255)
                         tttCAGCTCGCTTTCTTACAGGGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCGTGACGGAAATGAAGGTCTTCTGGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTGCGGTTATTGTGAACGCACt                                                                                                     >  7:56247/3‑138 (MQ=255)
                         tATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGGCCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACt                                                                                                     >  7:602/1‑138 (MQ=255)
                           tCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCa                                                                                                   <  3:357082/138‑1 (MQ=255)
                             aGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGa                                                                                                 <  8:172877/138‑1 (MQ=255)
                              gCTCGCTTTCTTACAGTGAGCTTGAAGCAATTCAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGAAATTACCCGTTCTGTTATTGTGAACCCACTCAGa                                                                                                 >  8:287442/1‑137 (MQ=255)
                                  gCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCa                                                                                                   >  5:255410/1‑131 (MQ=255)
                                  gCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCa                                                                                                   <  6:255410/131‑1 (MQ=255)
                                  gCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTg                                                                                           <  8:221282/139‑1 (MQ=255)
                                          aCAGTGAGGTTGAAGCAATTGAGCACATTTTTGAGGAGCTTTACGGAAATTAAGGTCTTCTTGTTGCAATTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGagag                                                                                      <  4:95719/136‑1 (MQ=255)
                                           cAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGGGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAgcgc                                                                                   <  2:199618/138‑1 (MQ=255)
                                              tGAGCTTGAAGTAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGgt                                                                               >  3:277517/1‑139 (MQ=255)
                                              tGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGga                                                                                         <  7:355919/129‑1 (MQ=255)
                                              tGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGga                                                                                         >  8:355919/1‑129 (MQ=255)
                                              tGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGgt                                                                               >  6:294836/1‑139 (MQ=255)
                                                aGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGtt                                                                                                                        >  3:90759/1‑96 (MQ=255)
                                                aGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGtt                                                                                                                        <  4:90759/96‑1 (MQ=255)
                                                aGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGgtgt                                                                             >  7:20718/1‑139 (MQ=255)
                                                aGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCTCCGgtct                                                                             >  3:243707/1‑137 (MQ=255)
                                                aGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGgtgt                                                                             >  7:12000/1‑139 (MQ=255)
                                                   ttGTAGTAATTGATCACATTTTTGAGGAGCTTGTCGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTTACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGTAGAGCGCCGGTGTTAt                                                                          <  4:277517/139‑1 (MQ=255)
                                                     gAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTAt                                                                          <  2:90902/137‑1 (MQ=255)
                                                     gAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTAt                                                                          <  8:160139/137‑1 (MQ=255)
                                                     gAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTAt                                                                          <  1:9546/137‑1 (MQ=255)
                                                           aTTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTc                                                                    >  6:153368/1‑137 (MQ=255)
                                                            ttGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGCGCGCCGGTGTTATCGAGTCTAg                                                                 <  3:242253/139‑1 (MQ=255)
                                                               aGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGAt                                                               <  5:144998/138‑1 (MQ=255)
                                                                 cacaTTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCAt                                                            <  6:295493/139‑1 (MQ=255)
                                                                 cacaTTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATc                                                                         <  1:276175/126‑1 (MQ=255)
                                                                 cacaTTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATc                                                                         >  2:276175/1‑126 (MQ=255)
                                                                  acaTTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCAtt                                                           <  2:148390/139‑1 (MQ=255)
                                                                  acaTTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCAtt                                                           <  8:20718/139‑1 (MQ=255)
                                                                   caTTTTTGAGGAGTTTGATGGAAATGAATGTTTTCTTGTTGGAAGTAAAATTGCTGACCGTGTCGGCATTACCTGTTCTTTTATTGTGAACGCACTGTGAAAGGTGTAGATGGCCGGTTTTTTCGAGTATAGATCATTa                                                          <  6:128141/139‑1 (MQ=255)
                                                                       tttGAGGAGCTTGACGTAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGATGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGAACTCAGAAAGCTGTAGAGCGCCTGTGTTATCGAGTCTATATCATTAGGa                                                       <  7:287442/138‑1 (MQ=255)
                                                                       tttGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGGCCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGa                                                       <  8:602/138‑1 (MQ=255)
                                                                           aggggCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGaa                                                  <  8:319585/139‑1 (MQ=255)
                                                                           acgagCTTTACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCAGATCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGaa                                                  <  2:57917/137‑1 (MQ=255)
                                                                             gagCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAg                                                <  8:12000/139‑1 (MQ=255)
                                                                             gagCTTGAAGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTTCTGACCGTGTCGGGATTAGCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAg                                                <  2:168353/139‑1 (MQ=255)
                                                                              agCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAgg                                               >  4:225900/1‑139 (MQ=255)
                                                                                cTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGa                                                                                                 <  2:9821/87‑1 (MQ=255)
                                                                                cTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGa                                                                                                 >  1:9821/1‑87 (MQ=255)
                                                                                 ttGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATAAAAGGTAc                                            <  3:206212/139‑1 (MQ=255)
                                                                                   gACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATAAAAGGTAc                                            <  5:294836/137‑1 (MQ=255)
                                                                                        aaaTGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGtt                                                                                                                        >  2:67763/1‑56 (MQ=255)
                                                                                        aaaTGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGtt                                                                                                                        <  1:67763/56‑1 (MQ=255)
                                                                                         aaTGCAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCa                                    <  7:161013/139‑1 (MQ=255)
                                                                                         aaTGAAGGTCTTCTTGATGCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCa                                    <  5:243861/139‑1 (MQ=255)
                                                                                                  cttcttGTTGCAACTAAAATTGCTGACCGTGTCGGCAATACCCGTACTGATATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGAGTTATCGAGTCTAGATCATTAGGAATGAAAGCTACTTATATCAAGGTACTa                            >  6:56240/1‑138 (MQ=255)
                                                                                                        gttgCAAGTAAAATTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAaacaac                      <  3:225900/138‑1 (MQ=255)
                                                                                                                  aaaTTGCTGACCGTGTCGACATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTaa            <  4:150296/138‑1 (MQ=255)
                                                                                                                            ccGTGTAGACATTACCCGTTCTGTTATTGTGAACGCACTCAGTTAGCTGGAGAGCGCCGGTTTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGa  <  4:243707/138‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                 
GAAGCAAAGCTGTCGTACAAATGGCTATCAGCTCGCTTTCTTACAGTGAGCTTGAAGCAATTGAGCACATTTTTGAGGAGCTTGACGGAAATGAAGGTCTTCTTGTTGCAAGTAAAATTGCTGACCGTGTCGGCATTACCCGTTCTGTTATTGTGAACGCACTCAGAAAGCTGGAGAGCGCCGGTGTTATCGAGTCTAGATCATTAGGAATGAAAGGTACTTATATCAAGGTACTAAACAACAAATTCCTAATTGAATTAGA  >  CP006881/1653656‑1653917

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑