Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 945,717 C→T 6.4% A776T (GCA→ACA)  mnhA2 ← CPA3 family monovalent cation:proton (H+) antiporter‑3 subunit A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730945,7170CT 6.4% 178.2 / 2.3 63A776T (GCA→ACA) mnhA2CPA3 family monovalent cation:proton (H+) antiporter‑3 subunit A
Reads supporting (aligned to +/- strand):  ref base C (30/28);  new base T (2/2);  total (32/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.06e-01

CATTACCATGAAAAAGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATGTCTATTT  >  CP000730/945579‑945856
                                                                                                                                          |                                                                                                                                           
acttACCATGAAAAAGATAATAACTGCAGCAAATTGCACAATTAGGTGATTTTGTTGTGCATTCGTGATTTTTCCCCTCCTTATCTTGCGTTTGAGGCTTTTTACTTAATTTACCCATTGTATATACAGCTAATCCTGCGa                                                                                                                                           <  2:1180/139‑1 (MQ=255)
     ccATGAAAAAGATAATACCTGCAGCCAATTGCAAACTTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGTCGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCa                                                                                                                                      <  1:67920/141‑1 (MQ=255)
     ccATGAAAAAGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCCTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCa                                                                                                                                      <  2:498560/141‑1 (MQ=255)
     ccAGGAAAAAGATAATAACTGCAGCAAATTGTAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCa                                                                                                                                      <  2:699556/141‑1 (MQ=255)
            aaaGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGTGATACCAAGcacaa                                                                                                                               >  2:426071/1‑140 (MQ=255)
            aaaGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGTGATACCAAGCACAg                                                                                                                               >  2:426065/1‑141 (MQ=255)
             aaGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGa                                                                                                                              >  1:362353/1‑141 (MQ=255)
             aaGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGa                                                                                                                              >  1:455378/1‑141 (MQ=255)
             aaGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGa                                                                                                                              >  1:626595/1‑141 (MQ=255)
             aaGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCAAGAATTTTCACCTCGATCCCTTTCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAACTAATCCTGCGATACCCAGCACAGa                                                                                                                              >  2:476414/1‑141 (MQ=255)
             aaGATAATAACTGCAGAACATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGa                                                                                                                              >  2:679055/1‑141 (MQ=255)
                     aaCTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGa                                                                                                                      <  1:66555/141‑1 (MQ=255)
                     aaCTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAAATGACCCGa                                                                                                                      >  1:428038/1‑141 (MQ=255)
                     aaCTGCAGCAAATCGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGa                                                                                                                      <  1:326380/141‑1 (MQ=255)
                        tGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATa                                                                                                                   <  1:680125/141‑1 (MQ=255)
                          tagcaAATTGCAAAATTAGATCATTTTGCTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATaaa                                                                                                                 <  2:449580/140‑1 (MQ=255)
                             caAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCCCCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTa                                                                                                              <  1:322489/141‑1 (MQ=255)
                                  tGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACAAAGCACAGATGACTCGAATAAAGTATCCAt                                                                                                         >  2:44057/1‑141 (MQ=255)
                                   ccAAAATTAGATCATTTTTTTGTCCATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATa                                                                                                        <  1:155342/140‑1 (MQ=255)
                                    cAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATAc                                                                                                       <  1:732288/141‑1 (MQ=255)
                                        aTTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACg                                                                                                   <  2:527187/141‑1 (MQ=255)
                                        aTTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACg                                                                                                   <  1:55857/141‑1 (MQ=255)
                                              tCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTAAATCATTGGATATACAGCGAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATc                                                                                             >  2:281770/1‑141 (MQ=255)
                                                aTTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTGTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCACGCACAGATGACTCGAATAAAGAATCCATACCACGAAAAGcaa                                                                                           >  2:445171/1‑141 (MQ=255)
                                                         tCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGa                                                                                  <  2:180724/141‑1 (MQ=255)
                                                          cTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGAc                                                                                 <  2:486762/141‑1 (MQ=255)
                                                             ttCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGtt                                                                              <  1:436395/141‑1 (MQ=255)
                                                              tCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGttt                                                                             <  1:401416/141‑1 (MQ=255)
                                                                   aTTTTTCACCTCGTTACCCTGCGTTGGACGCTTTTTACGTAATTTAATCCTGGTATATACAGCGAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCAt                                                                        <  1:254083/141‑1 (MQ=255)
                                                                    tttttCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATg                                                                       >  1:86176/1‑141 (MQ=255)
                                                                     ttttCACCTCGTTACCTAGCGTTCGACGCATTTTACGTAATTTAATCATCGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCCCGCAAATCAACAAGTATGACGTTTACCATGt                                                                      >  2:365014/1‑141 (MQ=255)
                                                                        tCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATCTACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGtttt                                                                   <  2:276813/141‑1 (MQ=255)
                                                                          aCCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATAAACAAGTGTGACGTTTACCATGTTTTTa                                                                 >  2:286753/1‑141 (MQ=255)
                                                                           ccTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTAc                                                                >  2:378479/1‑141 (MQ=255)
                                                                           ccTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTAc                                                                >  2:74279/1‑141 (MQ=255)
                                                                                  aCCTTGCGTTTGACGCTTTTTACGTAATGCCCGCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGc                                                         >  1:382190/1‑141 (MQ=255)
                                                                                        cGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATc                                                   >  1:667447/1‑141 (MQ=255)
                                                                                           ttGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATa                                                <  1:370662/141‑1 (MQ=255)
                                                                                            tGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGATCTAAATCATaa                                               <  2:6691/141‑1 (MQ=255)
                                                                                                gCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGt                                           >  2:526129/1‑141 (MQ=255)
                                                                                                           aaTTTAATCATTGTATATACAGCGAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAACCGTGCTCTTGATaa                                <  1:430788/141‑1 (MQ=255)
                                                                                                               tAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACt                            >  2:379515/1‑141 (MQ=255)
                                                                                                               tAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACt                            >  1:733002/1‑141 (MQ=255)
                                                                                                                 aTCATTGTATATACAGCTAATCCTGTGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTa                          <  1:426065/141‑1 (MQ=255)
                                                                                                                 aTCATTGTATATACAGCTAATCCTGTGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTa                          <  1:426071/141‑1 (MQ=255)
                                                                                                                 aTCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGTTGGCTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTa                          >  1:542245/1‑141 (MQ=255)
                                                                                                                        tatataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCg                   >  2:58200/1‑141 (MQ=255)
                                                                                                                        tatataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCg                   <  2:162444/141‑1 (MQ=255)
                                                                                                                        tatataCAGCTAATCCTGCCATACCAAACACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCg                   <  1:624859/141‑1 (MQ=255)
                                                                                                                         atataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGa                  >  2:584520/1‑141 (MQ=255)
                                                                                                                          tataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAACCTTAGATATCGAt                 >  1:27727/1‑141 (MQ=255)
                                                                                                                          tacaCAGCTAAACCTGACATACCAAGCACAGATTACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGAt                 <  1:27558/138‑1 (MQ=255)
                                                                                                                           ataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGCGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGAtt                >  1:290222/1‑141 (MQ=255)
                                                                                                                           ataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGAtt                <  1:334748/141‑1 (MQ=255)
                                                                                                                           ataCAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACAACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCAGTAACGTGCTCTTGATAAAACTTTGATATGGAtt                >  1:526680/1‑141 (MQ=255)
                                                                                                                                  tAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATg         <  1:74279/141‑1 (MQ=255)
                                                                                                                                  tAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATg         <  1:378479/141‑1 (MQ=255)
                                                                                                                                   aaTCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATGt        <  2:86176/141‑1 (MQ=255)
                                                                                                                                   aaTCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTCATAAAACTTAGATATCGATTCAAAATGt        >  2:342029/1‑141 (MQ=255)
                                                                                                                                    aTCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATGTc       >  1:285586/1‑141 (MQ=255)
                                                                                                                                      ccTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATGTCtt     >  2:663373/1‑140 (MQ=255)
                                                                                                                                      ccTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAAGTATCGAtatacaatctact     >  2:149568/1‑129 (MQ=255)
                                                                                                                                         gCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGGGCTCTTGGTAAAACTTAGATATCGATTCAAAATGTCTAttt  >  2:145357/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                           
CATTACCATGAAAAAGATAATAACTGCAGCAAATTGCAAAATTAGATCATTTTGTTGTCTATTCATGATTTTTCACCTCGTTACCTTGCGTTTGACGCTTTTTACGTAATTTAATCATTGTATATACAGCTAATCCTGCGATACCAAGCACAGATGACTCGAATAAAGTATCCATACCACGGAAATCAACAAGTATGACGTTTACCATGTTTTTACCGTGAGCTAAATCATAAACGTGCTCTTGATAAAACTTAGATATCGATTCAAAATGTCTATTT  >  CP000730/945579‑945856

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑