Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 2,235,729 C→T 18.8% E26K (GAA→AAA)  U712_11225 ← Transcriptional regulatory protein resD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068812,235,7290CT18.8% 132.9 / 20.9 59E26K (GAA→AAA) U712_11225Transcriptional regulatory protein resD
Reads supporting (aligned to +/- strand):  ref base C (21/26);  new base T (6/5);  total (28/31)
Fisher's exact test for biased strand distribution p-value = 7.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.85e-01

CATCAGATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACTATGCATAAGAA  >  CP006881/2235595‑2235864
                                                                                                                                      |                                                                                                                                       
catcaGATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGtca                                                                                                                                     >  4:221681/1‑139 (MQ=255)
catcaGATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTATTAAAATGAGGCGAATTCTGGCTTCGtc                                                                                                                                      >  4:290597/1‑138 (MQ=255)
  tcaGATCAAGCAATATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTGCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGtcatc                                                                                                                                   <  4:367527/139‑1 (MQ=255)
  tcaGATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGtcatc                                                                                                                                   <  1:298419/139‑1 (MQ=255)
  tcaGATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGtcatc                                                                                                                                   <  7:28349/139‑1 (MQ=255)
     gATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCCCCATTTTCCGCTTCATCTATTGCATTATTTTCACGTTCAAGATACATTCGTAAAAGGCGGCGAATTCTGGGTTCGtcatcacc                                                                                                                                >  2:245170/1‑137 (MQ=255)
           gCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAActacta                                                                                                                           >  4:94360/1‑138 (MQ=255)
           gCAAAATTAAGTCATAATTGGCTACAAGCCCTATGGCAATGGCTTAATCACCAGTATCAGCGTCATCTTTAGCATAATTTTCACGTTCAAGATACATTATAAAAAGGCGGCGAATTCTGGCTTAGTGATCAActacta                                                                                                                           >  7:178215/1‑138 (MQ=255)
                aTTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATAttt                                                                                                                     >  8:172695/1‑139 (MQ=255)
                        aTAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTttcg                                                                                                             <  4:189575/139‑1 (MQ=255)
                          aaTTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCCACTACTAATATTTTTGGttcgtt                                                                                                           >  3:113619/1‑139 (MQ=255)
                              ggCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTtcgttcgt                                                                                                        <  3:221681/138‑1 (MQ=255)
                               gCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGTCGGCGATTTCTGGCTTCGTCATAAACTACTAATATTTTTGATTCGTTCGttt                                                                                                      >  3:249110/1‑139 (MQ=255)
                               gCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTcgttcgtt                                                                                                       <  1:34130/138‑1 (MQ=255)
                               gCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTcgttcgtt                                                                                                       <  5:303081/138‑1 (MQ=255)
                                    aaGGCCTTTGGCAATGGCTTCATCACCATTATCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAATGGCGGCGAATTCTGGGTTTGTCATCATCTACTAATATTTTTGTTTCGTTCGTTTGGTc                                                                                                  <  8:178215/138‑1 (MQ=255)
                                    aaGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTc                                                                                                  <  3:163058/138‑1 (MQ=255)
                                                  tGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTg                                                                                   >  3:325242/1‑139 (MQ=255)
                                                  tGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTg                                                                                   >  5:302561/1‑139 (MQ=255)
                                                  tGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTg                                                                                   >  3:65609/1‑139 (MQ=255)
                                                                ttttCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGtcatc                                                                                                                                   <  3:22619/77‑1 (MQ=255)
                                                                ttttCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGtcatc                                                                                                                                   >  4:22619/1‑77 (MQ=255)
                                                                ttttCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGtt                                                                      >  4:347630/1‑138 (MQ=255)
                                                                ttttCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTa                                                                     >  6:194908/1‑139 (MQ=255)
                                                                        ttCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCACCTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCAtt                                                             >  8:99204/1‑139 (MQ=255)
                                                                           aTCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGtcatc                                                                                                                                   <  2:35807/66‑1 (MQ=255)
                                                                           aTCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGtcatc                                                                                                                                   >  1:35807/1‑66 (MQ=255)
                                                                                   cATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATct                                                  >  8:407606/1‑138 (MQ=255)
                                                                                     tAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATAAAATCGt                                                 >  7:127059/1‑138 (MQ=255)
                                                                                     tAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCa                                                               <  4:133552/124‑1 (MQ=255)
                                                                                     tAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCa                                                               >  3:133552/1‑124 (MQ=255)
                                                                                     tAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGt                                                 >  7:66350/1‑138 (MQ=255)
                                                                                     tAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGt                                                 >  4:398128/1‑138 (MQ=255)
                                                                                     tAATTTTCACGTTCAAGATACATTCTT‑AAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTAGTTTCATTTTTTAAAATCGt                                                 >  2:370334/1‑137 (MQ=255)
                                                                                      aaTTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGt                                                 >  3:149380/1‑137 (MQ=255)
                                                                                      aaTTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGt                                                 >  7:148747/1‑137 (MQ=255)
                                                                                       aTTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTgag                                              <  8:42107/139‑1 (MQ=255)
                                                                                          ttCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCTTCATCAACTCCTAATATTTTTGTATCGTTCGTTTGGTCCTTGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGaa                                            <  2:30559/138‑1 (MQ=255)
                                                                                          ttCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGaa                                            <  2:30558/138‑1 (MQ=255)
                                                                                                 tCAAGATACATTCATAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTgag                                    <  6:300120/139‑1 (MQ=255)
                                                                                                  cAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTgag                                    <  2:235683/138‑1 (MQ=255)
                                                                                                          aTTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTc                           <  3:94360/139‑1 (MQ=255)
                                                                                                             cTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGc                         <  4:65609/138‑1 (MQ=255)
                                                                                                                 aaaGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCa                    <  3:398128/139‑1 (MQ=255)
                                                                                                                 aaaGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATAATTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCATTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTc                     >  2:37251/1‑138 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGa               <  5:194908/139‑1 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGa               <  3:347630/139‑1 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTTGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCGTTCCTTCTGTTTCTTTCATTTTATCAAATCGTGAGAAAGTTTGAGACCTGTGTCGCTTTCAAAGGa               >  6:118530/1‑139 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGa               <  1:94870/139‑1 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGa               >  7:81208/1‑139 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGa               <  8:148747/139‑1 (MQ=255)
                                                                                                                      cggcgAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGa               <  8:66350/139‑1 (MQ=255)
                                                                                                                       ggcgAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTGCGTTCGTTTGGTCGATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGAc              <  3:403609/139‑1 (MQ=255)
                                                                                                                        gcgAATTCTTGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACt             <  3:370880/139‑1 (MQ=255)
                                                                                                                        gcgAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACt             >  3:332207/1‑139 (MQ=255)
                                                                                                                                  gCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACTATGCATa      <  3:290597/136‑1 (MQ=255)
                                                                                                                                  gCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACTATGCATa      <  4:325242/136‑1 (MQ=255)
                                                                                                                                   cTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAATTACTATGCATAAGaa  <  4:167682/139‑1 (MQ=255)
                                                                                                                                   cTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACTATGCATAAGaa  <  6:302561/139‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                       
CATCAGATCAAGCAAAATTAAGTCATAATTGGCTTCAAGCCCTTTGGCAATGGCTTCATCACCATTTTCAGCTTCATCTATAGCATAATTTTCACGTTCAAGATACATTCTTAAAAGGCGGCGAATTCTGGCTTCGTCATCAACTACTAATATTTTTGTTTCGTTCGTTTGGTCCATGTTTTCCCCCTGCTTTCCTTCTGTTACTTTCATTTTATCAAATCGTGAGAAAGTTTGAGAACTGTGTCGCTTTCAAAGGACTATGCATAAGAA  >  CP006881/2235595‑2235864

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑