Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,206,4440TA27.7% 98.0 / 12.1 47intergenic (‑188/‑19)ttdR/ttdADNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha
Reads supporting (aligned to +/- strand):  ref base T (4/30);  new base A (13/0);  total (17/30)
Fisher's exact test for biased strand distribution p-value = 1.69e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAC  >  NC_000913/3206316‑3206577
                                                                                                                                |                                                                                                                                     
gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTgg                                                                                                                            <  2:767171/140‑1 (MQ=255)
gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTgg                                                                                                                            <  2:373614/140‑1 (MQ=255)
gCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTgg                                                                                                                            <  1:408696/140‑1 (MQ=255)
  tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                          <  2:1298894/140‑1 (MQ=255)
  tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                                          <  1:1376965/140‑1 (MQ=255)
           atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTCAACAAAAACAAAAAATCGAGGTGTCatga                                                                                                                 >  2:439294/1‑140 (MQ=255)
           atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAACTGGAGTTGCCatga                                                                                                                 >  1:710848/1‑140 (MQ=255)
           atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatga                                                                                                                 <  1:336142/140‑1 (MQ=255)
           atatTCATTCTCACTTTCGCGTTGATTAACGAACTGTTAATTACATATTCCCGGTGGCAAAAAATCTAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAGTACAAAAACTGGCGTTGCCatga                                                                                                                 <  2:926601/140‑1 (MQ=255)
            tatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGAAAAAAAAAAAAAAAGGAGATGCCctgat                                                                                                                >  2:1095367/1‑140 (MQ=255)
             attcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatgatg                                                                                                               <  1:28820/140‑1 (MQ=255)
               tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAg                                                                                                             <  2:1386848/140‑1 (MQ=255)
               tcattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAg                                                                                                             <  2:422678/140‑1 (MQ=255)
                cattcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGTTGCCATGATGAgg                                                                                                            >  1:537734/1‑139 (MQ=255)
                 attcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAAACAAAAAAAAAAAAAGGGGTTGGCCTGATGAggg                                                                                                           >  2:1023013/1‑138 (MQ=255)
                  ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGa                                                                                                          <  1:216633/140‑1 (MQ=255)
                   tcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAAAAAAAAAGGAGTTGTCATTATGAGCGaa                                                                                                         >  1:631603/1‑140 (MQ=255)
                    cTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAAATTGGGGTGCCCTGATGAggggaa                                                                                                        >  2:1179821/1‑135 (MQ=255)
                     ttATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATATTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAg                                                                                                       <  2:961757/140‑1 (MQ=255)
                      tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAAAAAAAAATGAGTTGCCATGATTAGCGaaaaa                                                                                                      >  1:1344568/1‑138 (MQ=255)
                      tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACAAAAACAAAAAAAAGAGGTGCCATGATGAGCGgaaaa                                                                                                      >  1:344242/1‑138 (MQ=255)
                       aTTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGta                                                                                                     <  1:1023013/140‑1 (MQ=255)
                        ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGGGGTTGCATGATGAGCGAAAGtaa                                                                                                    >  2:823167/1‑140 (MQ=255)
                        ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAAAGGAGTTGCCATGATGAGCGaaaaaaa                                                                                                    >  1:1731/1‑136 (MQ=255)
                             gcgTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAATAAAAAAAATAGAGTTTGCCTGATGAGGGAAAAtaataaaa                                                                                               >  2:878766/1‑138 (MQ=255)
                               gTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa                                                                                             <  2:954228/140‑1 (MQ=255)
                               gTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa                                                                                             <  1:1304736/140‑1 (MQ=255)
                                ttGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAGAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAAc                                                                                            <  2:191019/140‑1 (MQ=255)
                                ttGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAAc                                                                                            <  1:823167/140‑1 (MQ=255)
                                   aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                         <  2:841904/140‑1 (MQ=255)
                                   aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                         <  2:152503/140‑1 (MQ=255)
                                   aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                         <  2:710848/140‑1 (MQ=255)
                                    ttCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc                                                                                        <  2:1327933/140‑1 (MQ=255)
                                             tGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGAGGTGGCATGATGAGCGGAAAGAATAAACAACAAGCAGTGAATaa                                                                               >  1:117673/1‑140 (MQ=255)
                                             tGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAAAGGAGTTGCCATGATGAGCGAAAGTAATAAACAACAAGCAGAGAATaa                                                                               >  1:1304654/1‑140 (MQ=255)
                                              gTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAg                                                                              <  1:878766/140‑1 (MQ=255)
                                                tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGtt                                                                            <  1:1095367/140‑1 (MQ=255)
                                                        tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAA‑TTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                   <  1:1160531/140‑1 (MQ=255)
                                                               ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTAAACAAAAAAAAAAAATGGAGGTGGCATGATGAGCGAAAGGAATAAACAAAAAGCAGGGAAAAAATTGACAGAGATTGTCGc                                                             >  2:782413/1‑140 (MQ=255)
                                                                  ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAAAAAAAAAGGGGTTGCCCTGATGAGGGAAAAGAAAAAAAAAAAAGCAATGAAAAAATTGACAGAGATTGTCGCtta                                                          >  2:454475/1‑138 (MQ=255)
                                                                             aaaaaCCACATTTTTAGTGGTAGTTTGTGGGGGTGAATTTTTCCAGAAAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAAAAAGCAACAGGCAGTGAATAAGTTGACAGAAATTGTCGCTAACTTTACCGCCa                                               <  2:117746/139‑1 (MQ=255)
                                                                                 aCCACATTTTTAGTGGTAGTTTGTGGCGGTGATTTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAt                                           <  1:1328835/140‑1 (MQ=255)
                                                                                   cacaTTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCACCATGAttt                                         <  2:537734/140‑1 (MQ=255)
                                                                                     caTTTTTAGTGGTAGTTTGTGGGGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCt                                       <  1:70245/140‑1 (MQ=255)
                                                                                           tAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAAAAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAACCAACAGGCAGTGAATAAGTGGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGa                                 <  2:513413/140‑1 (MQ=255)
                                                                                            ggTGGTATTTTGGGGCGGTGATTTTTTCAAGAAAAATAAAAAACCTGGAGTTGCCATGATGAGGAAAAGAAATAAGAAACGGGCAGTGAATAAGTTGACAGAGATTGTCGCAAACTTTACCGCCATGATTTCTACCCGaa                                <  2:1344568/139‑1 (MQ=255)
                                                                                            aGTGGTATTTTGTGGCGGTGATTTTTCCCAGACAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa                                <  1:1320119/140‑1 (MQ=255)
                                                                                                gTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAAAAAAAATGGGGGTGCCCTGATGAGGGGAAGTAATAAACAAAAAGCAGTGGAAAAATTGAAAGAGAATTTTGCTAACTTTTCCCCCCTGATTTTTTCCCCAATGcc                            >  2:315769/1‑140 (MQ=255)
                                                                                                  aGTTTGTGGCGGTGAATTTTTTCCGAAAAAAACAAAAAAAGGAGGTGCCATGATGAGCGAAAATAAAAAAAAAAAAGCGGAGAAAAAAATGAAAAAGAATGTCGCTAACATTTCCCCCATGATTTTTTTCCGAAAGcccg                          >  2:1320119/1‑138 (MQ=255)
                                                                                                              tGAATTTTTTCCGACAAAAACAAAAAATGGAGGTGCCATGATGAGCGAAAGTAATAAAAAACAAGCAGGGAAAAAAATGACAGAGATTGTCGCTAACTTTACCGCCATGATTTTTACCCGAATACCTGAAGACGgggtgg              >  2:1181143/1‑140 (MQ=255)
                                                                                                               aattttttCCAGAAAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa             <  2:344242/137‑1 (MQ=255)
                                                                                                               aatttttcCCAGAAAAATAAAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGATGTGGTGGa             <  2:117673/137‑1 (MQ=255)
                                                                                                               aaaTTTTTCCAGACAAATAAAAAACCTGGAGTTGCAATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa             <  2:598797/139‑1 (MQ=255)
                                                                                                                 ttttttCCAGAAAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATa           <  2:966824/139‑1 (MQ=255)
                                                                                                                     ttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACt       >  2:1086428/1‑140 (MQ=255)
                                                                                                                       ccaaaaaaaTACAAAAACTGGAGTTGCCATGAGGAGCGAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaa     <  2:1731/134‑1 (MQ=255)
                                                                                                                        cAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaaa    <  1:782413/140‑1 (MQ=255)
                                                                                                                          gACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc  >  2:53937/1‑140 (MQ=255)
                                                                                                                                |                                                                                                                                     
GCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAC  >  NC_000913/3206316‑3206577

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: ‑