Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 2,762,312 C→G 6.3% Q97E (CAG→GAG) ‡ yfjQ → CP4‑57 prophage; uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092732,762,3120CG 6.3% 2124.5 / 93.4 603Q97E (CAG→GAG) ‡yfjQCP4‑57 prophage; uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base C (309/254);  new base G (24/14);  total (334/269)
Fisher's exact test for biased strand distribution p-value = 4.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.18e-01

Only 100 of 608 total aligned reads displayed.

CCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGATGCTGCCGGGCA  >  CP009273/2762245‑2762378
                                                                   |                                                                  
cccccGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAAc                                                                    >  1:24841439/1‑68 (MQ=255)
  cccGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAActg                                                                  <  1:6066273/68‑3 (MQ=255)
  cccGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAg                                                                  >  1:14222165/1‑68 (MQ=255)
     gtcgtcgtGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGtt                                                               <  1:12028300/68‑1 (MQ=255)
      tcgtcgtGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTAACGGTAAACAGGtt                                                               >  1:16465419/1‑67 (MQ=255)
           gtGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGaa                                                         <  1:18650817/68‑1 (MQ=255)
           gtGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGaa                                                         <  1:23328282/68‑1 (MQ=255)
           gtGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGaa                                                         <  1:28535901/68‑1 (MQ=255)
            tGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGaaa                                                        >  1:19151195/1‑68 (MQ=255)
               gCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAAtt                                                      <  1:9605558/67‑1 (MQ=255)
                 aTACTAAGCATATGCTGCGACTACGTCGGGAGGGGCAAATTACCTGTAAAAAGGTTCCGGAAATTAt                                                    <  1:7031410/67‑1 (MQ=21)
                  tACTAAGCATATGCTGCGCCTACGTCGGGAGTGGCAAATTACCGGTAAACAGGTTCCGGAAATTAt                                                    >  1:4359927/1‑66 (MQ=255)
                   aCTACGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCt                                                 <  1:3984851/68‑1 (MQ=255)
                    cTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCt                                                 >  1:10054902/1‑67 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCt                                                 >  1:33749268/1‑66 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGc                                               <  1:2949069/68‑1 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGc                                               <  1:15728144/68‑1 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGc                                               <  1:11697434/68‑1 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGc                                               <  1:10968466/68‑1 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGc                                               <  1:21744938/68‑1 (MQ=255)
                     tAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGc                                               <  1:10464644/68‑1 (MQ=255)
                      aaacATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGc                                               <  1:13231038/64‑1 (MQ=255)
                       aGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCtt                                             >  1:3718783/1‑68 (MQ=255)
                       aGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCtt                                             >  1:125985/1‑68 (MQ=255)
                        gCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:6754655/1‑68 (MQ=255)
                        gCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:7509396/1‑68 (MQ=255)
                        acATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGCTTa                                            >  1:9834976/2‑68 (MQ=255)
                         cATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGCTTaa                                           >  1:23769394/1‑68 (MQ=255)
                         cATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGCTTaa                                           >  1:9152410/1‑68 (MQ=255)
                         cATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGCTTaa                                           <  1:7816833/68‑1 (MQ=255)
                         cATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGCTTaa                                           >  1:1976419/1‑68 (MQ=255)
                         cATATGTTACGTCTTCGCAGGGAAGGGCATATTAACGGGCAGGAAGTTCCTGAAATTATCCTGCTTaa                                           >  1:1513669/1‑68 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTTCTTa                                            >  1:28776239/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:13766170/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:26098069/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:30909816/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:34372039/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:1465330/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:5119104/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:576194/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:7264086/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:11214640/1‑67 (MQ=255)
                         cATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTa                                            >  1:10696727/1‑67 (MQ=255)
                          atatGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTaa                                           <  1:32700738/67‑1 (MQ=255)
                          atatGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAAc                                          <  1:15558156/68‑1 (MQ=255)
                          atatGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAAc                                          <  1:27434957/68‑1 (MQ=255)
                           tatGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAAct                                         <  1:3553306/68‑1 (MQ=255)
                           tatGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAAc                                          >  1:21985610/1‑67 (MQ=255)
                             tgctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGaa                                                         >  1:4234062/1‑50 (MQ=255)
                             tgctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAActc                                        >  1:26336889/1‑67 (MQ=255)
                             tgctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAActc                                        >  1:33331234/1‑67 (MQ=255)
                             tgctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAActc                                        >  1:32403103/1‑67 (MQ=255)
                             tgctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAActc                                        >  1:31333213/1‑67 (MQ=255)
                             tgctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTACCGGAAATTATCCTGCTTAActc                                        >  1:24312170/1‑67 (MQ=255)
                              gctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:33016740/1‑68 (MQ=255)
                              gctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:17761472/1‑68 (MQ=255)
                              gctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      <  1:12292475/68‑1 (MQ=255)
                              gctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:20320524/1‑68 (MQ=255)
                              gctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:30780470/1‑68 (MQ=255)
                              gctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:16540241/1‑68 (MQ=255)
                               ctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:26739706/1‑67 (MQ=255)
                               ctgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:23938276/1‑67 (MQ=255)
                               ctgcGCCTACGTCGGGAGGGGCAAATTACCCGTAAACAGGTTCCGGAAAATATCCTGCTTCACtctc                                      >  1:26921056/1‑67 (MQ=255)
                               ctgcGCCTACGTCGGGAGGGGCAAACTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACtctc                                      >  1:28118555/1‑67 (MQ=255)
                                tgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCa                                     <  1:14514245/67‑1 (MQ=255)
                                tgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCAc                                    >  1:21516314/1‑68 (MQ=255)
                                tgcGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCAc                                    >  1:29813136/1‑68 (MQ=255)
                                   gcCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGa                                  <  1:33511931/67‑1 (MQ=255)
                                   gcCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGAt                                 >  1:26462730/1‑68 (MQ=255)
                                    ccTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATg                                >  1:18339681/1‑68 (MQ=255)
                                    ccTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATg                                >  1:22444155/1‑68 (MQ=255)
                                      tACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGc                              <  1:4932764/68‑1 (MQ=255)
                                      tACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGc                              <  1:15978563/68‑1 (MQ=255)
                                       aCGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCa                             <  1:27800958/68‑1 (MQ=255)
                                         gTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCAcc                           >  1:6519765/1‑68 (MQ=255)
                                         gTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCAcc                           >  1:16848533/1‑68 (MQ=255)
                                           cGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAg                         <  1:8406347/68‑1 (MQ=255)
                                           cGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAg                         <  1:25163957/68‑1 (MQ=255)
                                           cGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAg                         <  1:3193314/68‑1 (MQ=255)
                                           cGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAg                         <  1:5513573/68‑1 (MQ=255)
                                            gggAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGt                        <  1:24568208/68‑1 (MQ=255)
                                            gggAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGt                        <  1:11511646/68‑1 (MQ=255)
                                            gggAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGt                        <  1:4550388/68‑1 (MQ=255)
                                            gggAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGt                        <  1:27584460/68‑1 (MQ=255)
                                            gggAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGt                        <  1:3008385/68‑1 (MQ=255)
                                              gAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTc                      >  1:29162648/1‑68 (MQ=255)
                                              gAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTc                      >  1:2566732/1‑68 (MQ=255)
                                               aGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCg                     >  1:34063208/1‑68 (MQ=255)
                                                ggggCAAATTACCGGTAAACAGGTTCCTGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGt                    >  1:19965857/1‑68 (MQ=255)
                                                  ggCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGt                    <  1:19465409/66‑1 (MQ=255)
                                                  ggCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGt                    <  1:30554058/66‑1 (MQ=255)
                                                  ggCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGt                    <  1:16157604/66‑1 (MQ=255)
                                                  ggCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGt                    <  1:22921781/66‑1 (MQ=255)
                                                   gCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTAc                  <  1:19072641/67‑1 (MQ=255)
                                                       aTTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGAt             <  1:17509330/68‑1 (MQ=255)
                                                          aCCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGAtgct          <  1:13002562/68‑1 (MQ=255)
                                                           ccGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGAtgctg         <  1:2084572/68‑1 (MQ=255)
                                                             ggTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGATGCTGcc       <  1:27184351/68‑1 (MQ=255)
                                                                aaaCAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGATGCTGCCggg    <  1:12764380/68‑1 (MQ=255)
                                                                aaaCAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGATGCTGCCggg    <  1:21234646/68‑1 (MQ=255)
                                                                   |                                                                  
CCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTACCAGATGCTGCCGGGCA  >  CP009273/2762245‑2762378

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