Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,622,8160GA51.8% 11.0 / 79.9 54intergenic (+75/+144)yneM/dgcZinner membrane‑associated protein/diguanylate cyclase, zinc‑sensing
Reads supporting (aligned to +/- strand):  ref base G (23/3);  new base A (0/28);  total (23/31)
Fisher's exact test for biased strand distribution p-value = 2.39e-12
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.53e-05

TATGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACGGAGCTTAAACT  >  NC_000913/1622669‑1622966
                                                                                                                                                         |                                                                                                                                                      
tATGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGaa                                                                                                                                                      <  2:537534/150‑1 (MQ=255)
  tGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGaaaa                                                                                                                                                    <  1:130255/150‑1 (MQ=255)
   ggCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGaaaaaa                                                                                                                                                  <  1:66302/151‑1 (MQ=255)
     ccGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGaaaaaaa                                                                                                                                                 >  2:847764/1‑150 (MQ=255)
       gTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAAcc                                                                                                                                              >  2:431329/1‑151 (MQ=255)
              gAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGt                                                                                                                                        >  1:580362/1‑150 (MQ=255)
                    ttttttttttTGTTTTTCGGGCCGTGTATTACAGCCAAAAGGGGGATGAATAATGAAGGGAAATAACCCCTCACCTACCCGCCCCTTTGTTACAGTTGTGTACAGGGGGCTTGTTTTTTAGGAGGGAAAAAAAAAACCGCCAGTAAACcg                                                                                                                                  <  2:353583/150‑1 (MQ=255)
                    tttttttttCTGTTTTTCGGGCCGTTTTTTCCACCCAAAAAGGGGAGAACAAATAAAGGGAAAAAACCCCCCCCCAACCCGCCCCTTTTTTACGTTTGTGTAAAGGGGCCTTGTTTTTTAGGCCGGAAAAAAAAAAACCGCCAGTAAAcc                                                                                                                                   <  2:547933/150‑1 (MQ=255)
                            tctggttttctggCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGaa                                                                                                                          >  1:766143/1‑150 (MQ=255)
                              tggttttctggCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGc                                                                                                                       >  1:701271/1‑151 (MQ=255)
                                 ttttctggCCGCTTTTTCCACCCAAAAAGGGGATGATTAATGAACGGAAAAACCCCCTCCCCTACCCGCCCCTTTTTTACATTTGTGAACAGGGGGCTTGTTTTTTAGGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAAt                                                                                                                         <  2:375680/146‑1 (MQ=255)
                                  ttttggcccGCTTTTTCCACCCAAAAAGGGGATGACTAAGGAAGGGAAAAACCCCCCCCCCAACCCGCCCCTTTTTTACGGTTGTGAACAGGGGCCTTGTTTTTTATGAGGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTg                                                                                                                    <  1:23413/143‑1 (MQ=255)
                                   ttctggCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGc                                                                                                                   >  2:136365/1‑150 (MQ=255)
                                     ctggCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATg                                                                                                                >  2:589985/1‑151 (MQ=255)
                                       ggCCGCTTATTTCACCCACAAAGGGGATGAAAAATGAAGGGAAATAACCCCCCCCCAACCCGCCCCTTTTTTACATTTGTGAACAGGGGGCTTGTTTTTTAGGCCGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATg                                                                                                                <  1:844592/149‑1 (MQ=255)
                                       ggCCGCTTATTCCACCCAAAAAGGGGATGACTAATGAACGGAAAAAACCCCCCCCCAACCCGCCCCTTTTTTACAGTTGTGTACAGGGGGCTTGTTTTTTATGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCAt                                                                                                                 <  2:155699/148‑1 (MQ=255)
                                           gcttATTCCACCCAAAAAGGGGATGAAAAATGAAGGGAAATACCCCCTCCCCAACCCGCCCCTTTTTTACAGTTGTGAACAGGGGGCTTGTTTTTTATGAGGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAg                                                                                                           <  1:50298/147‑1 (MQ=255)
                                             gTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGAtt                                                                                                        >  2:907363/1‑151 (MQ=255)
                                              ttttccAGCAAAAAAGGGGAGGACAAAGGAACGGAAATAACCCCTCCCCAACCCGCCCCTTTGTTACAGTTGTGTAAAGGGGGCTTGTTTTTTATGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGa                                                                                                          <  2:538134/143‑1 (MQ=255)
                                                ttccacccAAAAAGGGGATGACAAATGAGCGGAGATAACCCCCCCCCAACCCGCCCCTTTTTTACATTTGTGTAAAGGGGGCTTGTTTTTTAGGAGGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTtg                                                                                                      <  2:74413/144‑1 (MQ=255)
                                                ttacAGCCACAAAGGGTATCACTAAAGAACGGAAATAATCCCTCTCCAACCCCCCCCCTTTTTAGAGTTGTATAAAGGGGACTTTTTTTTTAGGGCGAAAAAAAAAAGCCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTtg                                                                                                      <  2:372067/147‑1 (MQ=255)
                                                   cacccACAAATGGGATAACAAATGACGGGAGAAAACCCCCCCCCTACCGGCCCCTTTGTTACAGTTGTGTACAGGGGGCCTGATTTTTATGCCGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTtgtg                                                                                                    <  2:180658/146‑1 (MQ=255)
                                                    aGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGttt                                                                                                 >  1:676391/1‑151 (MQ=255)
                                                    aGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAAAGCTTGCATGGGTAGATTTGTGctt                                                                                                 >  2:253603/1‑151 (MQ=255)
                                                      ccACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTg                                                                                               >  2:187862/1‑151 (MQ=255)
                                                        aaaaaTGGGATGACTAATGAGGGGAAATAACCCCTCCCCTACCGGCCCCTTTTTTACGGTTGTGAAAAGGGGGCTTGTTTTTTATGGGGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGtt                                                                                                  <  1:904857/144‑1 (MQ=255)
                                                          aaaTGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCttt                                                                                           >  1:292059/1‑151 (MQ=255)
                                                          aaaTGGAATGACTAATGAACGGAAATAACCCCCCCCCTACCCGCCCCTTGTTTACAGTTGTGAAAAGGGGGCCTTATTTTTATGCCGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGttt                                                                                                 <  2:577370/145‑1 (MQ=255)
                                                                           aaggaaaaTAACCCCCCCCCAACCCGCCCCTTTTTTAAAGTGGTGTAAAGGGGGCCTGTTTTTTATGACGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCAtt                                                                           <  2:607364/143‑1 (MQ=255)
                                                                                  aaaacccccccccTACCCGCCCCTTTGTTACAGTTGTGTACAGGGGGCTTGTTTTTTAGGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCa                                                                   <  2:44010/140‑1 (MQ=255)
                                                                                  aTAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGc                                                                    >  2:300230/1‑150 (MQ=255)
                                                                                        cccccccTACCCGCCCCTTTTTTACTGTGGTGAAAAGGGGGCTTTTTTTTTAGGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGAt                                                              <  1:960755/145‑1 (MQ=255)
                                                                                         cTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATa                                                             >  2:337891/1‑150 (MQ=255)
                                                                                             ccTACCCGCCCCTTTTTTACTGTTGGGAACAGGGGGCTTTTTTTTTAGGGGGGCAAAAAAAATCCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACg                                                          <  1:376068/149‑1 (MQ=255)
                                                                                                acccGCCCCCTTTTTACGTTTGTTAAAAGGGGGCTTGTTTTTTATGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAAt                                                       <  1:898248/147‑1 (MQ=255)
                                                                                                aaCCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCg                                                     >  2:296991/1‑151 (MQ=255)
                                                                                                    ggCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTg                                                  >  2:929908/1‑150 (MQ=255)
                                                                                                            tGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGt                                           >  1:24486/1‑150 (MQ=255)
                                                                                                               ttACAGTTGTGTACAGGGGGCTTGTTTTTTAGGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAg                                         <  1:300705/150‑1 (MQ=255)
                                                                                                                  aaGTTGTGTACAAGGGGCTTTTTTTTTATGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATc                                     <  1:667078/150‑1 (MQ=255)
                                                                                                                            aaaGGGGCCTTTTTTTTTAGGCCGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGtttt                               <  1:55752/147‑1 (MQ=255)
                                                                                                                              aGGGGCCCTATTTTTTTAGGCGGCAAAAAAAAGCCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCa                           <  2:189461/150‑1 (MQ=255)
                                                                                                                                  gCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCaatgaat                     >  2:910083/1‑151 (MQ=255)
                                                                                                                                   ccTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCaatgaatg                    >  1:810643/1‑151 (MQ=255)
                                                                                                                                    cttGATTTTTAGGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCaatgaat                     <  2:940090/148‑1 (MQ=255)
                                                                                                                                     cttgttttttATGACGGCAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCaatgaat                     <  2:889008/145‑1 (MQ=255)
                                                                                                                                      tGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGtt                  >  2:401279/1‑151 (MQ=255)
                                                                                                                                         ttttttATGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGtt                  <  1:495327/148‑1 (MQ=255)
                                                                                                                                         ttttttAGGAGGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTa                 <  1:952314/149‑1 (MQ=255)
                                                                                                                                          tttttATGAGGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGt                   <  2:292086/147‑1 (MQ=255)
                                                                                                                                          tttttATGACGGAAAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTa                 <  1:596412/149‑1 (MQ=255)
                                                                                                                                             ttATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACgg            >  2:158888/1‑151 (MQ=255)
                                                                                                                                              tATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACgg            >  2:480350/1‑150 (MQ=255)
                                                                                                                                               aTGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACgg            >  1:335472/1‑149 (MQ=255)
                                                                                                                                                         gAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACGGAGCTTAAACt  >  2:73953/1‑151 (MQ=255)
                                                                                                                                                         |                                                                                                                                                      
TATGGCCGTACTGGGAATAATTTTATTTTCTGGTTTTCTGGCCGCGTATTTCAGCCACAAATGGGATGACTAATGAACGGAGATAATCCCTCACCTAACCGGCCCCTTGTTACAGTTGTGTACAAGGGGCCTGATTTTTATGACGGCGAAAAAAAACCGCCAGTAAACCGGCGGTGAATGCTTGCATGGATAGATTTGTGTTTTGCTTTTACGCTAACAGGCATTTTCCTGCACTGATAACGAATCGTTGACACAGTAGCATCAGTTTTCTCAATGAATGTTAAACGGAGCTTAAACT  >  NC_000913/1622669‑1622966

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: