Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,601,1600GA43.9% 63.8 / 31.7 57F309F (TTC→TTTftsXputative ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base G (27/5);  new base A (0/25);  total (27/30)
Fisher's exact test for biased strand distribution p-value = 2.32e-11
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGTATAACACGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGTCGCACCAATC  >  NC_000913/3601011‑3601307
                                                                                                                                                     |                                                                                                                                                    
agTATAACACGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCg                                                                                                                                                      >  1:736429/1‑150 (MQ=255)
agTATAACACGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCg                                                                                                                                                      >  1:382174/1‑150 (MQ=255)
     aaCACGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAAcc                                                                                                                                               >  1:658203/1‑151 (MQ=255)
      acacGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCt                                                                                                                                              <  1:577387/151‑1 (MQ=255)
        acGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCtgt                                                                                                                                            >  1:816376/1‑151 (MQ=255)
         cGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCtgtg                                                                                                                                           >  2:792645/1‑151 (MQ=255)
              ttattaTTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACt                                                                                                                                      >  2:852761/1‑151 (MQ=255)
                 ttattCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTc                                                                                                                                    <  2:560218/150‑1 (MQ=255)
                   attCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGc                                                                                                                                 >  1:33579/1‑151 (MQ=255)
                   attCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGc                                                                                                                                 <  2:429896/151‑1 (MQ=255)
                        ggCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAAcc                                                                                                                             <  2:1036408/150‑1 (MQ=255)
                        ggCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAAcc                                                                                                                             >  1:584479/1‑150 (MQ=255)
                               aGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATg                                                                                                                      >  1:343292/1‑150 (MQ=255)
                                   gCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAAt                                                                                                                 >  1:840113/1‑151 (MQ=255)
                                       aaaTGTTGTCCCGGGGCAACCCCCGCTCCCCCCCAGCCAATCATCGAGCATACCAGCAGAAATAGCAGCCATTCAACAAATGATAACCCATTAATATAAACCTTCGTCCCAAAACCCTGTCCCCCTCCCGCACCCGCCGATGACAATCgc                                                                                                              <  1:250380/150‑1 (MQ=255)
                                        aaTGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCgc                                                                                                              >  1:233939/1‑149 (MQ=255)
                                            ttggccggTGGCAACCCCCCCGCCCCCCCAACCAATCATCGACCACCCCAGCAGCAATACCAGGCATTCATCGAATAAAACGCAATTAATAAAAACCTTCGTACCAAAAACCGGTCCCCCTCCCGAAACCGCCGATGACAATCgcagca                                                                                                          <  2:655928/142‑1 (MQ=255)
                                               tACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCAcc                                                                                                        >  2:645955/1‑148 (MQ=255)
                                               tACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCAcc                                                                                                        >  2:226167/1‑148 (MQ=255)
                                                   gTGGAAACCCACGCGCCCCCCCACCAAATCACCGAGCATCCCAGAAGAAATAGCAGGCATTCATCAAATGAAAAGCCATTGATAAAAAACTTCGTCCCAAAACCCTGTGCCACTCCCACAACCGCCGATGACAATCGCAGCACCAg                                                                                                      <  1:674552/146‑1 (MQ=255)
                                                        aaGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGAc                                                                                            >  1:1007179/1‑151 (MQ=255)
                                                           ccACGCTCCCCCCCAGCAAATCACCGACCATCCCAGAAAAAAAAGCAGGCATTCATCAAATGAAAAGCCATTAATATAAACCTTCGTCCCAAAACCCTGTCCCACTCCCACAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACaa                                                                                          <  1:901563/150‑1 (MQ=255)
                                                                cccccccccacccaATCACCGACCAACCCAGCAGCAATAGCAGGCATTAACCAAATGATAAGCAATTGATATCAACCTCCTTCCCAAACCCCTGTCCCCTTCCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAAt                                                                                       <  1:487611/142‑1 (MQ=255)
                                                                cTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTa                                                                                     >  1:68932/1‑150 (MQ=255)
                                                                   ccccccAGCCAATCATCGACCATCCCAGCAACAAAGGCAGGCATTCACCGAATAAAAAGCCATTAAAATCAACTTTCTTCCCAAAAACCTGTGCCCCTCCCCCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAAt                                                                                   <  1:249740/146‑1 (MQ=255)
                                                                      cccAGCAAATCAACGAGCATACCAGAAAGAAGAACGGGCATTCATAGAAGGATAAGCATTTGATACAAATCTCCGTCCCAAAAGCCGGGCCCACTCCCGAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGaca                                                                               <  1:613177/150‑1 (MQ=255)
                                                                      cccAACAAATCACCGAGCATCCCAGAAGAAATAGCAGGCTTTCATCGAATGATAAGCATTTAATATAAAACTTCGTTCCAAAACCCGGTGCCCTTCCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGac                                                                                <  1:305910/149‑1 (MQ=255)
                                                                      ccaaacaaaaaatcGAGCATACCAGCAACAAGCGCGGGCATTCATCAAATAAAAAGCATTTGATATAAAACTTCGTCCCAAAACCCTGTCCCTCCTCCACAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGacaa                                                                              <  2:313526/140‑1 (MQ=255)
                                                                             aaTCATCAACCATCCCAGCAGAAATAGCGGGCATTCATCAAATAATAAGCTATTAATAAAAATCTTCGTCCCAAAACCCTGTGCCCCTCCCGAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATg                                                                         <  1:183656/149‑1 (MQ=255)
                                                                                catcGAGCATACCAGCAGAAAAAGCAGGCATTCATAAAATAAAAAGCCATTAATAAAAACCTCCGTCCCAAAACCCTGTCCCCCTCCCGAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATgcg                                                                       <  2:879077/148‑1 (MQ=255)
                                                                                caccGACCACACCAGCAACAATAGCAGGTTTTCATCAAATGATAAGCCTTTAATATAAATCTTCGTCCCAAAACCCTCGCCCCCTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATg                                                                         <  1:849206/143‑1 (MQ=255)
                                                                                        atcccAGCAGAAATAGCAGGCATTCATCGAATAAAAAGCTATTGATATCAACCTTCGTCCCAAAACCCTGTGCCCCTCCCGAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATgc                                                                        <  1:45768/136‑1 (MQ=255)
                                                                                           ccAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCTTTGATATAAACCTTCGTCCCAAAACCCTGTCCCTCTCCCCAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATccc                                                           <  1:588243/149‑1 (MQ=255)
                                                                                             agcagaAATAGCAGGCTTTCATGAAATAAAAACCAATTTATATAAACCTTCTTCCCAAAACCCTGTGCCACTCCCGAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGaaaa                                                               <  1:734121/143‑1 (MQ=255)
                                                                                                   aaaagcagcCATTCAAAGAATAATAAGCTATTAATATCAACCTTCTTCCAAAAACCCTGTCCCACTCCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTgc                                                   <  1:895661/146‑1 (MQ=255)
                                                                                                   aaTAGCGGGCATTCATCAAATAATAAGCCATTAATATAAACCTTCGTCCCAAAACCCTGTCCCCCTCCCAAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTg                                                    <  1:51117/148‑1 (MQ=255)
                                                                                                     tAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGcc                                                >  1:690981/1‑150 (MQ=255)
                                                                                                       gCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGAAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGccacc                                             >  2:633354/1‑151 (MQ=255)
                                                                                                          ggaaTTCATCAAATAAAAACCCATTGAAATCAACCTTCTTTCAAAAACCCTGTCCCCCTCCCGAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGcca                                               <  2:829643/143‑1 (MQ=255)
                                                                                                             aTTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATAc                                         >  1:791923/1‑149 (MQ=255)
                                                                                                              ttCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAgg                                      >  1:391741/1‑151 (MQ=255)
                                                                                                                 aTCAAATGAAAACCCTTTGATATAAACCTTCTTCCCAAAACCCTGTCCCACTCCCCCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGa                                     <  1:824871/149‑1 (MQ=255)
                                                                                                                         aTAACCCATTTATATAAACCTTCGTCCCAAAACCCTGTCCCACTCCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAg                           <  1:500607/151‑1 (MQ=255)
                                                                                                                           aaGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAgg                          >  1:800312/1‑150 (MQ=255)
                                                                                                                             gCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATg                       >  2:1066848/1‑151 (MQ=255)
                                                                                                                              ctaTTAATATCAAACTTCGTCCCGAAACCCGGCCCCCCTCCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGAt                        <  1:513101/147‑1 (MQ=255)
                                                                                                                              ccATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATg                       >  1:909162/1‑150 (MQ=255)
                                                                                                                                 ttGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATc                   >  2:499557/1‑151 (MQ=255)
                                                                                                                                  taatatAAAACTTCTTCCAAAAACCCTGTCCCCCTCCCCAAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATc                   <  1:429904/148‑1 (MQ=255)
                                                                                                                                  tGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATcc                  >  1:288160/1‑151 (MQ=255)
                                                                                                                                   gATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATcc                  >  1:972970/1‑150 (MQ=255)
                                                                                                                                    atatCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCa                 >  1:601232/1‑150 (MQ=255)
                                                                                                                                     tatCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGAAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATc               >  2:315017/1‑150 (MQ=255)
                                                                                                                                       acAACCTTCGTACCAAAACCCTGCCCCCCTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCt              <  1:858177/149‑1 (MQ=255)
                                                                                                                                        cAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGt            >  2:332493/1‑151 (MQ=255)
                                                                                                                                         aaaCTGCGTCCCAAAACCCTGTCCCCTTCCCACAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGTc           <  2:825544/151‑1 (MQ=255)
                                                                                                                                          accTTCGTCCCAAAACCCTGTGCCACTCCCCCAACCGCCGATGACAATCGCAGCACCTGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGTCg          <  1:676544/149‑1 (MQ=255)
                                                                                                                                                 ttCCAAAACCCTGTGCCACTCCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGTCGCa        <  1:11515/146‑1 (MQ=255)
                                                                                                                                                   ccGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGTCGCACCAATc  >  2:582461/1‑150 (MQ=255)
                                                                                                                                                     |                                                                                                                                                    
AGTATAACACGCTTTTATTATTCAGGCGTAAAGTGGCGTAAATGTTGTACCGTGGCAAGCCACGCTGCCACCCAGCCAATCATCGAGCATACCAGCAGCAATAGCAGGCATTCATCGAATGATAAGCCATTGATATCAAACTTCGTTCCGAAAACCTGTGCCACTTCCGCAACCGCCGATGACAATCGCAGCACCAGAATTTCTGACAAAATTAATGACAACAATGCGCCAGAAAATCCCAGCAGTGCGCCACCATACAGGAACGGGCGCAGGATGAATCCATCTGTCGCACCAATC  >  NC_000913/3601011‑3601307

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: