Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,903,6920CA43.1% 85.0 / 44.2 58intergenic (+318/+1055)ygcE/queEputative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
Reads supporting (aligned to +/- strand):  ref base C (6/27);  new base A (25/0);  total (31/27)
Fisher's exact test for biased strand distribution p-value = 4.74e-11
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01

ATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAATTTC  >  NC_000913/2903555‑2903835
                                                                                                                                          |                                                                                                                                                    
atatTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATTTAAAAACACCCAtttgac                                                                                                                                        >  1:770766/1‑146 (MQ=255)
   ttAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACCCATTAGcc                                                                                                                                        >  1:125742/1‑147 (MQ=255)
       cTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACTCCTTAAACTCaaaaa                                                                                                                                >  1:935892/1‑149 (MQ=255)
          cacTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACaaa                                                                                                                             <  2:413766/150‑1 (MQ=255)
          cacTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAg                                                                                                                            <  2:445027/151‑1 (MQ=255)
              cGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACaa                                                                                                                        <  1:663626/151‑1 (MQ=255)
                    cTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACCCACTAACCCCCAaaaaaaaaaaaaaatcc                                                                                                                  >  1:445318/1‑146 (MQ=255)
                        aGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGa                                                                                                              <  2:295780/150‑1 (MQ=255)
                        aGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAt                                                                                                             <  1:971843/151‑1 (MQ=255)
                        aGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACCCATTAGCCCCCAaaaaaaaaaaaa                                                                                                                       >  1:471563/1‑142 (MQ=255)
                                aGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATTTTAAAACACCCATTAACCTCCAAAAAAAAAAAAAAATCCCGATttatt                                                                                                        >  1:519443/1‑148 (MQ=255)
                                 gACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACtt                                                                                                   <  2:617586/151‑1 (MQ=255)
                                       aCGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTATCCaa                                                                                             <  2:838805/151‑1 (MQ=255)
                                         gAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACTCATTTACCTCAAAAAAAAAAAAAAATTTCCAATTTTTTTATTTAAcaa                                                                                              >  2:584853/1‑147 (MQ=255)
                                         gAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATg                                                                                           <  2:448556/151‑1 (MQ=255)
                                          aaTCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGa                                                                                          <  2:855080/151‑1 (MQ=255)
                                            tCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACCCATTAAACTCAAAAAAAAAAAAAAAATTCCAAATTTTTAATTTAACaaaaaa                                                                                          >  1:773084/1‑147 (MQ=255)
                                             cGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAAt                                                                                        <  1:610180/150‑1 (MQ=255)
                                             cGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAAt                                                                                        <  1:682626/150‑1 (MQ=255)
                                                aCTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACTCCTTAACCTCAAAACAAAAACAAAATTCCAGATTTATTATTTTAACAAAGAaaaa                                                                                      >  1:118394/1‑149 (MQ=255)
                                                  tttATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGCTTTTTTAAAAAAATCAATTACCTCAAAAAAAAAAAAAAAATCCAAAATTTTTTTTTTAACAAAAAATAACaa                                                                                   >  2:765830/1‑150 (MQ=255)
                                                     aTCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCt                                                                                <  2:9266/150‑1 (MQ=255)
                                                            ttCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTaaaaaa                                                                         <  1:203151/150‑1 (MQ=255)
                                                             tCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCTGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAat                                                                        <  2:263744/150‑1 (MQ=255)
                                                                  tAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTTAAAACACTCATTAGCCTCCAAAAAAAAACAAAAATCCCGATTTTTTTATTAAACAAAGAATAAAAAACTTaaaaaaaa                                                                       >  1:13377/1‑144 (MQ=255)
                                                                   aaaGTATGAACTGGAAATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGCTTTGTAAAAAACATCAATTGGCCCCAAAAAAAAAAAAAAATCCACAATTATTAATTAACAAAAGGAAAAAAAACTTAAAAAATATACttt                                                                 >  1:464785/1‑149 (MQ=255)
                                                                       tATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAAAACACATTAACCTCAAAAAAAAAACAAAAATCCCCAATTTTTTATTAAACAAAGAAAAAAAAACTTAAAAAAAATACTGTtttt                                                             >  2:933507/1‑151 (MQ=255)
                                                                       tATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACCCATTAACCTCAAAAAAAAAAAAAAAATCCCGATTTATTTATTTAACAAAAAAAAAAAAACTTAAAAAAaataattttttt                                                             >  1:10250/1‑143 (MQ=255)
                                                                       tATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATTTAAAAACAAACCTTAGGCTCCAAAAAAAAAAAAAATATCAGATTTTTTAAATTAAAAAATAAAAAACAAAGTAaaaaaaatacctttttt                                                              >  1:291303/1‑140 (MQ=255)
                                                                         tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACCCATTTACCTCCAAAAAAAAAAAAAAATCCAGAATTTTTTCTTTACCAAAGAATAACAAACTTtaaaaaaaaaattttttttt                                                           >  1:386071/1‑137 (MQ=255)
                                                                          gAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACACATTTTCCTCAAAACAAAAAAAAAAATCCCGATTTTTTTCTTTACCAATGAAAAAAAAAATTTAAAAAAATAATGTtttttt                                                           >  2:940515/1‑148 (MQ=255)
                                                                           aaCTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTaa                                                         <  2:756567/151‑1 (MQ=255)
                                                                               ggATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGaa                                                     <  1:286360/151‑1 (MQ=255)
                                                                               ggATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGGTATGTGAAACCACACATTTGCAACTAAACAAAAAAAAACATTCAGATTTTTTTCTTTAACAATTTAAAAAAAACCTAAAAAAGAAAATGTtttttt                                                           >  1:595849/1‑143 (MQ=255)
                                                                                gATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACCCAATAACCTCAAAAAAAAAACAAAAATCCAGATTTTTTTATTAAACAAAGAATAAAAAAATTAAAAAAAATAATGTTTTTTTTAAGaa                                                     >  1:777521/1‑150 (MQ=255)
                                                                                gATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTATTAAAACACACCATTACCCCCAAACAAAAAAAAACATCCCAATTTTTTTTTTTAACAACTAAAAAAAAACTTTAAAAAAATACATTTATTTTAAAGaa                                                     >  2:37856/1‑150 (MQ=255)
                                                                                   atCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGTTTAAAAAATATACTGTTATTCTAAAGaaaaa                                                  <  1:132799/150‑1 (MQ=255)
                                                                                    tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACTCATTAGCCTCAAAAAAAAAACAAAAATCCAGATTTATTTTTTAACCAATGAATAAAAAAATTAAAAAAAATAATGTTTTTTTTAAGaaaaaa                                                 >  1:331213/1‑150 (MQ=255)
                                                                                    tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACAATCCTTATCCTCAAAAAAAAAAAAAAATTCCCAAATTTTTAATTTAACAAATAAAAAAAAACCTTAAAAAAATAATTTTTTTTTTAaaaaaaaa                                                 >  2:119754/1‑150 (MQ=255)
                                                                                    tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAAAAATCATTTTCCCCAAAACAAAAAAAAAACTTCAAATTTATTAATTAAACAAATAAAAAAAAAATTAAAAAAAATAATTTTTTTTTTAaaaaaaaa                                                 >  2:392246/1‑150 (MQ=255)
                                                                                       ttATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAAtt                                               <  2:252695/149‑1 (MQ=255)
                                                                                        tATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATTTTAAAAAACACAATTAACCCAAAACAAAAAAAAAATTTCAAATTTTTTTATTTAACAAAGAATAAAAAACTTAAAAAAAAAAATTTTATTTTTAAAAAAAAAATaa                                             >  2:757560/1‑150 (MQ=255)
                                                                                            cATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTGTTAAAAAACACAATTACCTCAAAACAAAAAAAAAAATCCACATTTTTTAATTAAACAATAAAAAAAAAAACTAAAAAAAATAATCTTATTTTAAAAAAAAAAATaaaaagc                                        >  2:526990/1‑146 (MQ=255)
                                                                                             aTAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCa                                       <  2:255791/151‑1 (MQ=255)
                                                                                                    cTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACTCCTTAACCCCAAAAAAAAAAAAAAATTTCAGATTTTTTTATTTAACAAAAAATAAAAAAATTTAAAAAAAAAATGTTATTTTAAAAAAAAAAATAAAAAGCATTaaat                                 >  1:109739/1‑148 (MQ=255)
                                                                                                        tcatcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAat                             <  2:147771/150‑1 (MQ=255)
                                                                                                          atcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATAtt                          <  1:685991/151‑1 (MQ=255)
                                                                                                            caACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTa                         <  1:529174/150‑1 (MQ=255)
                                                                                                                aGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTaaaaaa                    <  2:248826/151‑1 (MQ=255)
                                                                                                                     ataGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAaataat               <  2:519301/151‑1 (MQ=255)
                                                                                                                        gagGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGa            <  2:434704/151‑1 (MQ=255)
                                                                                                                        gagGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTAATTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAaataat               >  2:579340/1‑148 (MQ=255)
                                                                                                                          ggCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGAtt          <  1:963388/151‑1 (MQ=255)
                                                                                                                            cGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTa         >  1:476198/1‑150 (MQ=255)
                                                                                                                             ggTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTaaa       <  1:122803/151‑1 (MQ=255)
                                                                                                                             ggTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTaa        >  1:267485/1‑150 (MQ=255)
                                                                                                                               ttATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAGAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAAt     >  2:539341/1‑151 (MQ=255)
                                                                                                                                  tGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAATTTc  >  1:940984/1‑151 (MQ=255)
                                                                                                                                          |                                                                                                                                                    
ATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAATTTC  >  NC_000913/2903555‑2903835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: