Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,206,4440TA24.0% 105.1 / 20.0 50intergenic (‑188/‑19)ttdR/ttdADNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha
Reads supporting (aligned to +/- strand):  ref base T (4/34);  new base A (12/0);  total (16/34)
Fisher's exact test for biased strand distribution p-value = 1.50e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTA  >  NC_000913/3206313‑3206582
                                                                                                                                   |                                                                                                                                          
ccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAAc                                                                                                                                    <  1:605363/140‑1 (MQ=255)
  tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTg                                                                                                                                  <  2:1007745/140‑1 (MQ=255)
    ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTATACAAAAACAAAAAATggg                                                                                                                                >  2:1287692/1‑139 (MQ=255)
    ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGa                                                                                                                                <  1:1077294/140‑1 (MQ=255)
    ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTTCGAAAAAAAAAAAAAATGGa                                                                                                                                >  2:706363/1‑140 (MQ=255)
     tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                               <  1:774104/140‑1 (MQ=255)
     tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                               <  1:679788/140‑1 (MQ=255)
     tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                               <  2:144335/140‑1 (MQ=255)
            cAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGGTGGCat                                                                                                                        >  2:90205/1‑140 (MQ=255)
              atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCCAACAAAAACAAAAAAAGGAGTTGCCaagg                                                                                                                      >  1:261848/1‑137 (MQ=255)
              atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGGAAAATACAAAAAAAGGAGTTGGCatga                                                                                                                      >  1:148338/1‑140 (MQ=255)
              atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatga                                                                                                                      <  1:1287692/140‑1 (MQ=255)
                attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatgatg                                                                                                                    <  2:755711/140‑1 (MQ=255)
                  tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAg                                                                                                                  <  1:103006/140‑1 (MQ=255)
                  tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAg                                                                                                                  <  1:273812/140‑1 (MQ=255)
                     ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGa                                                                                                               <  2:1056285/140‑1 (MQ=255)
                      tcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGaa                                                                                                              <  1:163603/140‑1 (MQ=255)
                         tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCCGACAAAAAAAAAAAAAGGAGGTGGCCTGATGAGCGgaaaa                                                                                                           >  1:1514615/1‑138 (MQ=255)
                         tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTTCAAACAAATACAAAAAATTGAGGTGCCAAGATTAGCGAAAga                                                                                                           >  1:1475475/1‑139 (MQ=255)
                           ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAAAACAAAAAATGGAGTTGCCATGATGAGCgaaagaaa                                                                                                         >  1:1321309/1‑140 (MQ=255)
                                    tGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACa                                                                                                <  1:613071/140‑1 (MQ=255)
                                      aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                              <  1:90205/140‑1 (MQ=255)
                                      aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                              <  1:1139465/140‑1 (MQ=255)
                                        tCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa                                                                                            <  1:619414/140‑1 (MQ=255)
                                           cGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTg                                                                                         <  2:817035/140‑1 (MQ=255)
                                             acaggTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa                                                                                       <  1:423372/136‑1 (MQ=255)
                                             aaCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa                                                                                       <  1:777134/140‑1 (MQ=255)
                                                          atatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTAGACAAAAAAAAAAAAAGGAGGTGGCCTGATGAGGGAAAGAAAAAAAAAAAAAGCAATGAATAAGATGACagag                                                                          >  2:1194018/1‑140 (MQ=255)
                                                          atatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAAAAAAAAAACTGGAGGTGCCATGATGGGGGGAAAGAATAAACAAAAAGCAGGGAAAAAATTGAAagaa                                                                          >  2:100431/1‑139 (MQ=255)
                                                           tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAgaga                                                                         <  1:1194018/140‑1 (MQ=255)
                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                        <  2:839181/140‑1 (MQ=255)
                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                        <  1:936529/140‑1 (MQ=255)
                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                        <  1:1397496/140‑1 (MQ=255)
                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTTAGACAAAAAAAAAAAATGGAGGTGCCATGATGGGGGAAAAGAATAAACAACAAGCAAAGAAAAAAATGACagaggt                                                                        >  2:936529/1‑138 (MQ=255)
                                                            atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCCGACAAAAAAAAAAAAAGGAGGTGGCATGATTAGCGAAAAAAAAAAAAAAAAAGCAATGAAAAAAATTACAgagaa                                                                        >  2:500815/1‑139 (MQ=255)
                                                              tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTg                                                                      <  1:611444/140‑1 (MQ=255)
                                                                   gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACAAAAAAAAAAAAAGGGGTTGGCATGATGAGGGAAAGGAAAAAAAAAAAAGCAGGGAAAAAAATGACAGAGAATGTCGCt                                                                 >  2:1154770/1‑140 (MQ=255)
                                                                   gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTTCAAACAAAAAAAAAAAATGGAGTTGGCATGATGAGGGGAAGAAATAAAAAAAAAGCAGGGAAAAAATTGACAGAGATTGTTGCt                                                                 >  2:1110806/1‑140 (MQ=255)
                                                                    tGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATTGAGTTGGCATGATGAGCGGAAGTAATAAACAAAAAGCAGGGAATAAATTGACAGAGATTGTCGCTa                                                                >  2:1408389/1‑140 (MQ=255)
                                                                           aaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGAAAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTAc                                                         <  2:1167277/140‑1 (MQ=255)
                                                                            aaTATAAAACCACATTTTTAGGGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGAAAGAGATTGTCGCTAACTTTAcc                                                        <  2:1475475/140‑1 (MQ=255)
                                                                                               aGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa                                     <  1:500815/140‑1 (MQ=255)
                                                                                               aGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTGGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa                                     <  2:1273028/140‑1 (MQ=255)
                                                                                                gTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAATTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAAt                                    <  2:142816/140‑1 (MQ=255)
                                                                                                   gTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAACAAAAAATGGGGGTGGCATGGTGAGGGGAAAAAAAAAACAAAAAGCAGAGAATAAATTGACAGAGATTGTCGGTAACTTTTCCGCCCTGATTTTTAACCCAAAGcc                                 >  2:1457390/1‑140 (MQ=255)
                                                                                                   gTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGGGTTGGCCTGATGAGCGAAAAAAAAAAAAAACAAAGAGAGAATAAATTGACAGAGATTTTTGCTAACTTTTTCCCCCTGATTTTTTCCCCAATGcc                                 >  2:285924/1‑140 (MQ=255)
                                                                                                   gTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGcc                                 <  1:1154770/140‑1 (MQ=255)
                                                                                                       tttGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGTTTGCATGATGAGCGAAAGGAAAAAGCAAAAAGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTTTTCCCCAAAGCCtgat                             >  2:625553/1‑140 (MQ=255)
                                                                                                                  gAATTTTTCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa                  <  1:453803/140‑1 (MQ=255)
                                                                                                                  aaaTTTTCCCAGACAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa                  <  1:704093/139‑1 (MQ=255)
                                                                                                                  aaaTTTTCCCAGAAAAATAAAAAAATTGGAGTTGCCATGATGAGCGAAAATAAAAAGCAACAGCAAGTAAATAAGTTGACAGAGATTGCCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa                  <  2:464682/139‑1 (MQ=255)
                                                                                                                          ccAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa          <  1:625553/140‑1 (MQ=255)
                                                                                                                          ccAGACAAATAAAAAACCGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGAAGTGAATAAGTTGACAGAGTTTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa          <  1:100431/140‑1 (MQ=255)
                                                                                                                            aGAAAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaaaa        <  1:456238/140‑1 (MQ=255)
                                                                                                                             gACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc       >  1:883599/1‑140 (MQ=255)
                                                                                                                             gACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc       >  2:600114/1‑140 (MQ=255)
                                                                                                                                  aTACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTa  >  2:407001/1‑140 (MQ=255)
                                                                                                                                  aTACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTa  <  1:1110806/140‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                          
CCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTA  >  NC_000913/3206313‑3206582

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑