Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913925,9000AG44.4% 67.3 / 17.7 55noncoding (72/88 nt)serWtRNA‑Ser
Reads supporting (aligned to +/- strand):  ref base A (7/23);  new base G (24/0);  total (32/23)
Fisher's exact test for biased strand distribution p-value = 2.69e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GAGTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAGAAGAA  >  NC_000913/925751‑926049
                                                                                                                                                      |                                                                                                                                                        
gAGTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGTGGGGGa                                                                                                                                                          <  2:796092/150‑1 (MQ=255)
  gTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTc                                                                                                                                                       <  1:172480/151‑1 (MQ=255)
     cACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCg                                                                                                                                                     >  1:168542/1‑149 (MQ=255)
     cACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGaa                                                                                                                                                   <  1:502064/151‑1 (MQ=255)
        tGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGtt                                                                                                                                                        >  1:229342/1‑144 (MQ=255)
           cGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCg                                                                                                                                            <  1:625360/151‑1 (MQ=255)
                    aGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGGGGGGGGGGGTTGGAAccccccgacgtt                                                                                                                                      >  1:19495/1‑142 (MQ=37)
                              ttCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTTGGACCCCCCAAACGTTGCCGta                                                                                                                               >  1:863903/1‑145 (MQ=255)
                              ttCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGTGGGGGGGGGTTGCACACCCCCTACGTAGCCGTCTac                                                                                                                            >  1:643932/1‑148 (MQ=25)
                                cacaGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGAACCCCCCCTACGTTTTCGta                                                                                                                               >  2:295646/1‑143 (MQ=25)
                                 acaGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAACCCCCCTACGTTGTCGGATacacac                                                                                                                        >  1:640919/1‑149 (MQ=25)
                                 acaGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCGAACCCCCCCTACGTTTCCGTATACACACtt                                                                                                                      >  1:320236/1‑151 (MQ=255)
                                  caGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGTTTGAAACCCCCATAAGTTGCCGTATaaaccactt                                                                                                                     >  2:140327/1‑146 (MQ=25)
                                    ggTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTcc                                                                                                                   <  2:126940/151‑1 (MQ=255)
                                       aaCATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAgg                                                                                                                <  1:42619/151‑1 (MQ=255)
                                        aCATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTCCAAACCCCCATACGTTTCCGTATACACAATTTCCCgg                                                                                                                >  1:348910/1‑150 (MQ=21)
                                          aTACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGAACCCCCCATACGTTGCCGGATACACACttttccgg                                                                                                                >  1:972242/1‑143 (MQ=21)
                                                  cccGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCtt                                                                                                      <  1:228923/150‑1 (MQ=255)
                                                              gTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGac                                                                                         <  1:89454/151‑1 (MQ=255)
                                                                tCACTGCCGTACAGACAGATAAAATTCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCGTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGaca                                                                                        <  1:81209/150‑1 (MQ=255)
                                                                  aCTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGATGGGGGGGATAGAAACCCCCCTAAATTGTCCTATAACAACCTTCCCGGCGGGCTCCTTCCGCCAcccaggccc                                                                                       >  1:729316/1‑141 (MQ=12)
                                                                   cTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCCCTACGTTTCCGTATACACACTTTCCAGGCGGGCTCCTTCAGCCACTCGGACAcc                                                                                      >  1:325119/1‑149 (MQ=255)
                                                                    tGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGTGGGGGGGGGTCTGAACCCCCCTACCTTGGCCCATCCACACCTTCCCGGGGGGCTCCCTCAGcccccccggcacccc                                                                                    >  1:983407/1‑137 (MQ=12)
                                                                      ccGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAAACCCCGATACGTTGCCGTATACCCACTTTTCAGGCGTGGTCCTTCCGCCACTCCGGCACCCCAcc                                                                                 >  1:267401/1‑151 (MQ=17)
                                                                      ccGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGAACCCCCCATACGTTGCCGTATACACACTTTTCAGGCGGGCTCCTTCAGCCACTCCGACACCTCAcc                                                                                 >  1:485809/1‑151 (MQ=17)
                                                                          acagacagATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATCCACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCaaa                                                                              <  2:869896/150‑1 (MQ=255)
                                                                           cagacagaTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTCGCACCCCCCATACGTTGCCGTATACACACTTTCCCGGAGTGGTCCTTCAGCCCCCCCGAGACCTCACCcaa                                                                              >  1:124900/1‑149 (MQ=14)
                                                                                agaTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGTTTCAACCCCCCATACGTTTCCGTATTAAAACTTTTCAGGCGTGCTCCCTCACCCCCTCCGGCACCCCCCCCAAAtttttt                                                                       >  2:220621/1‑151 (MQ=9)
                                                                                agaTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGGTTGAACCCCCCCTACGCTTCCGTATACACACTTTTCAGGGGGGGTCCTTCATCCCCCCGGACACCCCACCCAAATGtttt                                                                       >  2:424136/1‑151 (MQ=14)
                                                                                agaTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGGTCGAAACCCCCAAACGTTGCCGTATACACACTTTCCAGGGGGGGCCCCTCTCCCCCTCCGACACCCCCCCCAAATGtttt                                                                       >  2:479577/1‑151 (MQ=14)
                                                                                 gaTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGGGAGGGGGGGGTTCGAACCCCCCACACGTTGCCGTGTACAAACTTTCCCGGCGGGCTCCTTCCGCCCCCCGGGCCCCCCCCCAAAATGtttt                                                                       >  1:104317/1‑150 (MQ=14)
                                                                                  aTAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGGTTGAAACCCCCATAAGTTTGCGGATAAAAACATTTCAGGGGGGGGCCTTTCGCCAAATGGAAACCTCACCAAAAtttttt                                                                       >  2:521448/1‑149 (MQ=9)
                                                                                   tAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGAGTCTGAACCCCGATACGTTGCCGTATACACACTTTTCAGGCGTGGCCCTTCCTACCCCCGGACACCCCACCCAAAAGttttttt                                                                    >  1:539937/1‑148 (MQ=14)
                                                                                    aaaaTGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTa                                                                   <  1:169835/151‑1 (MQ=255)
                                                                                               aaaaaGCTCGCCCTTTCGTACGCGCTCTTCTTTAAAAATGGCGGTGACGGGGCCACTCGAACCCCCTATACGTTCCGGTATACACACTTTCCAGGCGTTCTCCTTCAGCCTCTCGGACACCTCGCCAAATTGTTTTGCTACCAATCCTCAt                                                       <  2:257413/151‑1 (MQ=255)
                                                                                                aaaaGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATg                                                      <  1:921747/151‑1 (MQ=255)
                                                                                                 aaaGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGAGGGGGGGGGTCTTACCCCCCCTACGTTTTCCTCTACACACTTTCCAAGGGTGGTTCCTCAGCCACTCGGGCACCCCACCCCACTGTTTTGTTACCCAAACTCCTgg                                                     >  2:370551/1‑151 (MQ=9)
                                                                                                 aaaGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGGTTGGACCCCCCAGACGTTTTCGGATAAACACTTTTCAGGCGGGCTCCCTCAGCCACTCGGACACCCCCCCCAATttttctttcttgcttt                                                             >  2:471266/1‑132 (MQ=2)
                                                                                                       cGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGc                                                <  1:836449/149‑1 (MQ=255)
                                                                                                           cTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACg                                            <  2:404918/150‑1 (MQ=255)
                                                                                                             ttCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACggg                                          <  1:649520/150‑1 (MQ=255)
                                                                                                              tCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAACCCCCCGCTACTTTCCGTATAAACCATTTCCCAGCGGGGTCCTTCAGCCCCTCGGGCACCCCCCCAAAATGTTTTTGTACCAAACCTACATGGGGGCAACgagg                                         >  2:766393/1‑150 (MQ=9)
                                                                                                                gTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGTTCGAACCCCCCATACGTTGCCGTATACACACTTTTCAGGCGTGCTCCTTCAGCCACCCGGACACCTCACCAAAATTTTTTTTTACCCAACCCCCTGGGGGGGAACgggggg                                       >  1:13705/1‑147 (MQ=11)
                                                                                                                    gAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGGTTTGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGGCACCCCACCAAATTGTTTTGCTACCAAAACTCATGGGGGGGAACGGGGCGccact                                  >  1:371991/1‑151 (MQ=17)
                                                                                                                            cttTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAg                              <  1:328745/147‑1 (MQ=255)
                                                                                                                               tAAATATGGCGGTGATGGGGGGATTCGAAACCCCCATACGTTGCCGTATCCACCCTTTCCCAGCGTGCGCCTTCAGCCACTCCGACAACTCCCCCAATTTTTTTTCTACCACACCTCATGGGTGGCAACGGGGCGCTACTATAGGGGGtt                        >  1:202877/1‑150 (MQ=255)
                                                                                                                               tAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGtt                        <  2:604314/150‑1 (MQ=255)
                                                                                                                               tAAATATGGCGGTGAGGGGGGGATTCGAACCCCCCATACGTTTCCGTATACACACTTTCCAGGCGGGGTCCTTCAGCCACTCGGACACCTCACCAAATTTTTTTGCTACCAAACCTCATTGGGGGCAACGGGGCGCTACTATAGGGAGtt                        >  1:163781/1‑150 (MQ=18)
                                                                                                                                    atGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGt                   <  2:320186/150‑1 (MQ=255)
                                                                                                                                        cGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAAc              <  1:34102/151‑1 (MQ=255)
                                                                                                                                        cGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAAc              <  1:340621/151‑1 (MQ=255)
                                                                                                                                        cGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAAc              <  1:92805/151‑1 (MQ=255)
                                                                                                                                             gAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGt           <  2:497501/150‑1 (MQ=255)
                                                                                                                                              aGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTc          >  1:406615/1‑150 (MQ=255)
                                                                                                                                               gggggggATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCa         >  1:612430/1‑150 (MQ=255)
                                                                                                                                                     gATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAgaagaa  <  2:693889/151‑1 (MQ=255)
                                                                                                                                                      |                                                                                                                                                        
GAGTTCACTGCCGTACAGGCAGCTTAGAAATTCACAGGTAACATACTCCACCCGCCCACCATGTTCACTGCCGTACAGACAGATAAAATGCGAAAAAAAAGCTCGCACTTTCGTACGAGCTCTTCTTTAAATATGGCGGTGAGGGGGGGATTCGAACCCCCGATACGTTGCCGTATACACACTTTCCAGGCGTGCTCCTTCAGCCACTCGGACACCTCACCAAATTGTTTTGCTACCAAACCTCATGGGTGGCAACGGGGCGCTACTATAGGGAGTTGGAGTAAAACGGTCAAGAAGAA  >  NC_000913/925751‑926049

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: