Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,903,6920CA51.1% 34.8 / 74.3 45intergenic (+318/+1055)ygcE/queEputative kinase/7‑carboxy‑7‑deazaguanine synthase; queosine biosynthesis
Reads supporting (aligned to +/- strand):  ref base C (6/16);  new base A (23/0);  total (29/16)
Fisher's exact test for biased strand distribution p-value = 1.15e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.69e-04

TTTTTACAAGGAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAATTT  >  NC_000913/2903543‑2903834
                                                                                                                                                     |                                                                                                                                                 
tttttACAAGGAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAc                                                                                                                                                   <  1:466318/150‑1 (MQ=255)
          gAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAACCACCCATTat                                                                                                                                        >  2:412138/1‑149 (MQ=255)
          gAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACTCATTAga                                                                                                                                       >  1:351428/1‑150 (MQ=255)
          gAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTGTAAAAACAAACATTaaa                                                                                                                                       >  1:7511/1‑149 (MQ=255)
          gAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAg                                                                                                                                        <  1:703273/150‑1 (MQ=255)
          gAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACTCATTaa                                                                                                                                        >  2:110645/1‑149 (MQ=255)
          gAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAAAACTCCtttg                                                                                                                                        >  1:543027/1‑148 (MQ=255)
              atTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAACCTc                                                                                                                                   >  2:426190/1‑150 (MQ=255)
                  aCTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAAc                                                                                                                              <  1:640333/151‑1 (MQ=255)
                  aCTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAAc                                                                                                                              <  2:559932/151‑1 (MQ=255)
                        cTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACTCAATTGACCCcaaacaaaaaa                                                                                                                        >  1:448863/1‑148 (MQ=255)
                                cTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACAATCATTAACCTCAAAACAAAAAAAAAAttt                                                                                                                 >  1:294220/1‑149 (MQ=255)
                                    aGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACTCATTTTCCTCAAAAAAAAAAAAAACTTCCAGAt                                                                                                            >  1:26439/1‑151 (MQ=255)
                                      aaTAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAt                                                                                                            <  1:328475/149‑1 (MQ=255)
                                      aaTAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAt                                                                                                            <  1:235562/149‑1 (MQ=255)
                                      aaTAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAt                                                                                                            <  1:94902/149‑1 (MQ=255)
                                      aaTAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAt                                                                                                            <  1:520403/149‑1 (MQ=255)
                                           aaGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTAc                                                                                                     <  2:503072/151‑1 (MQ=255)
                                            aGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTTAAAACACCCATTAACCTCCAAACAAAAACAAAATTCCAGAttttttttt                                                                                                    >  2:363239/1‑148 (MQ=255)
                                              aCAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACt                                                                                                    <  1:705226/149‑1 (MQ=255)
                                               cAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTTTAAAAACACTCATTTAACTCAAAAAAAAAACAAAAATCCCGATTTTTTACTTaa                                                                                                 >  1:109644/1‑151 (MQ=255)
                                                       aTCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGaa                                                                                         <  2:118418/151‑1 (MQ=255)
                                                            aCTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACa                                                                                   <  1:249708/151‑1 (MQ=255)
                                                                   cAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTTAAAACACTCATTATCCTCAAAACAAAAAAAAAATTTCAGATTTATTAATTTAACAAAGAATAACAAAATTaa                                                                            >  1:556574/1‑151 (MQ=255)
                                                                            cTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATAc                                                                   <  2:80312/151‑1 (MQ=255)
                                                                              tAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTg                                                                 <  1:627765/151‑1 (MQ=255)
                                                                               aaaGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGt                                                                <  1:131042/151‑1 (MQ=255)
                                                                                  gTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTGTTAAAACACTCATTTGCCTCAAAAAAAAAAAAAAATTCCAGATTTATTTCTTTAACAATGAATAAAAAACTTAAAAAAAATACTTTTAt                                                             >  1:30845/1‑151 (MQ=255)
                                                                                  gTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTGTAAAAAAACTCAATTAACCCAAAAAAAAGAAAAACTTTCAGATTTATTTCTTAAACAAAGAAAAAAAAACTTAAAAAATATAATGTTAt                                                             >  1:289020/1‑151 (MQ=255)
                                                                                    aTGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAGGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTc                                                           <  2:260226/151‑1 (MQ=255)
                                                                                           ggATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACTCATTATCCTCAAAAAAAAAACAAAATTCCCGATTTTTTACTTTACCAATGAATAACAAACTTAAAAAATATAATGTTTTTTTaaaaaa                                                    >  2:21253/1‑151 (MQ=255)
                                                                                                tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCCCTCATTAGCCTCCAAAAAAAAACAAACTTCCCGATTTATTTCTTAAACAATGAATAACAAACTTAAAAAAAATACTGTTATTCTAAAGaaaaaaa                                               >  2:185759/1‑150 (MQ=255)
                                                                                                tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAAAAATCATTAGACTCAAAAAAAAGACAAACTTCCAGATTTATTTATTAAACAAAGAATAAAAAACTTAAAAAAAATAATGTTATTTTaaaaaaaaaaa                                               >  1:695048/1‑150 (MQ=255)
                                                                                                        cATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTTTGTAAAAACACCCCTTTGCCTCAAAAAAAAAACAAACTTCCACATTTTTTTCTTAAACAAAGAATAACAAACTTAAAAAAAATACTGTTTTTTTAAAAAAAAAAATaaaaag                                        >  2:510540/1‑146 (MQ=255)
                                                                                                        cATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAACACACATTTTCCTCCAAACAAAAAAAAAATTCTAGAATTTTTACTTAAACAAAGAAAAACAAAGATTAAAAAAATAAAGTTTTTTTTAAAAAAAAATTaaaaag                                        >  1:684904/1‑146 (MQ=255)
                                                                                                          tAAGAACTATTCATCAACAGCGTATAGAGGCGGGTATGTAAAAACACACAATTTCCTCAAAACAAAGAAAAACTTTCAAATTTATTACTTAAACAAAGAAAAAAAAACTTAAAAAAAATAATGTTATTTTTAAAAAAAAAATaaaaaacaa                                     >  1:212722/1‑144 (MQ=255)
                                                                                                              aaCTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAAt                                 <  1:227212/151‑1 (MQ=255)
                                                                                                                cTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACCCCTTACCCTTAAAACAAAAAAAAACATCCAGATTTATTAATTAAACAATGAATAACAAAATTAAAAAAAATAATTTTTTTTTAAAGAAAAAAATAAAAAGCAATaaatt                               >  1:414712/1‑148 (MQ=255)
                                                                                                                  aTTCATCAACAGCGTATAGAGGCGGTTATTTAAAAACACTCATTAGCCTCAAAACAAAGAAAAACTTTCAGATTTATTACTTAAACAAAGAATAAAAAACTTAAAAAAAATAATGTTTTTTTTAAGAAAAAAATAAAAGGCATTAATTCaa                             >  2:435008/1‑151 (MQ=255)
                                                                                                                  aTTCATCAACAGCGTATAGAGGCGGTTATGTAAAAAAACCCAATTGGCTCAAAAAAAAAAAAAAAATCCCGAGTTTTTTCTTTAACAAAGAAAAAAAAACTTAAAAAAAATACAGTTTTTTTTAAAAAAAAAATAAAAAGGATTAATTTaa                             >  1:331012/1‑151 (MQ=255)
                                                                                                                     catcaACAGCGTATAGAGGCGGTTATGTAAAAACACTCCTTAGCCTCCAAAAAAAAAAAAAACTCCCGATTTATTTCTTTACCAAAGAAAAAAAAACTTAAAAAAAAAAATGTTATTTTTAAGAAAAAAATAAAAAGCATTAATTTAatat                          >  1:675467/1‑151 (MQ=255)
                                                                                                                     catcaACAGCGTATAGAGGCGGTTATGTAAAAACACTCATTAGCCTCCAAAAAAAAACAAAACTCCAGATTTTTTACTTTAACAAAGAATAAAAAACTTAAAAAAAATAATGTTATTTTAAAAAAAAAAATAAAAAGGATTAATTTAatat                          >  2:217953/1‑151 (MQ=255)
                                                                                                                          aCAGCGTATAGAGGCGGTTTTGTAAAAACACCCCATAGCCTTCAAAAAAAAAAAAAAATTCCGATTTATTTCCTTAACAAAGAAAAAAAAAAATAAAAAAAAAAATTTTTTTTTAAAAAAAAAAATAAAAAGCAATTATTCaaaaattaaa                     >  1:338887/1‑143 (MQ=255)
                                                                                                                          aCAGCGTATAGAGGCGGTTATGTAAAAACAATCATTTACCTCCAAAAAAAAAAAAAATTTCAGATTTTTTAATTTAACAAAGAAAAAAAAAAATAAAAAATAAAATATTTTTTTTAAAAAAAAAATAAAAAACATTAAATTAAAATTtaaa                     >  1:339026/1‑151 (MQ=255)
                                                                                                                                             aTGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAAttt  >  2:546918/1‑151 (MQ=255)
                                                                                                                                             aTGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAAttt  >  2:646476/1‑151 (MQ=255)
                                                                                                                                                     |                                                                                                                                                 
TTTTTACAAGGAATATTAACTACACTCGATGTCTTTAGAATAAAAGACAATACGAATCGCACTTTATCAATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATTACTTAACCAATGAATAACAAGCTTAAAAAATATACTGTTATTCTAAAGAAAAAATTAACAGGCATTAATTCAATATTAAAAAAATAATAGATTAAAATTT  >  NC_000913/2903543‑2903834

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: