Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,206,4440TA35.7% 55.5 / 22.7 42intergenic (‑188/‑19)ttdR/ttdADNA‑binding transcriptional activator Dan/L(+)‑tartrate dehydratase subunit alpha
Reads supporting (aligned to +/- strand):  ref base T (4/23);  new base A (15/0);  total (19/23)
Fisher's exact test for biased strand distribution p-value = 3.93e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAA  >  NC_000913/3206307‑3206583
                                                                                                                                         |                                                                                                                                            
ccATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAc                                                                                                                                            <  2:86022/140‑1 (MQ=255)
ccATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAc                                                                                                                                            <  1:338507/140‑1 (MQ=255)
   ttCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACaaa                                                                                                                                         >  1:196300/1‑140 (MQ=255)
      ccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAAc                                                                                                                                      <  2:125560/140‑1 (MQ=255)
          ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATAc                                                                                                                                            >  1:269768/1‑130 (MQ=255)
          ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATAc                                                                                                                                            <  2:269768/130‑1 (MQ=255)
           tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑g                                                                                                                                <  2:632663/140‑1 (MQ=255)
           tctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑g                                                                                                                                <  2:872879/140‑1 (MQ=255)
              ggCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAAAAGA‑GTTg                                                                                                                             >  1:314068/1‑140 (MQ=255)
               gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAACAAAAAAAAAAAAAGGA‑GGTgg                                                                                                                            >  2:844569/1‑139 (MQ=255)
                  cAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGAATTTTTTAAACAAAAACAAAAAATGGA‑GGTTCCat                                                                                                                         >  2:306791/1‑140 (MQ=255)
                    atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCatga                                                                                                                       <  2:790225/140‑1 (MQ=255)
                           ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGa                                                                                                                <  2:177847/140‑1 (MQ=255)
                           ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGa                                                                                                                <  1:597599/140‑1 (MQ=255)
                           ttcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGa                                                                                                                <  2:856965/140‑1 (MQ=255)
                           tacTTATTTTCTCATTGAATCACGATCTGTTTATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGGGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGa                                                                                                                <  2:680857/138‑1 (MQ=255)
                               tATTTTCTCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATAGA‑GGTGGCATGATGAGCGaaaaa                                                                                                            >  2:731040/1‑138 (MQ=255)
                               tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTCCCGAAAAAAAAAAAAAATGGA‑GTTGCCCTTATGGGCGAAAga                                                                                                            >  1:278533/1‑139 (MQ=255)
                               tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGA‑GGTGCCATGATGAGCGGAAga                                                                                                            >  1:328940/1‑139 (MQ=255)
                                            aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                               <  1:115253/140‑1 (MQ=255)
                                            aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                               <  1:765064/140‑1 (MQ=255)
                                            aTTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                                               <  1:306791/140‑1 (MQ=255)
                                                aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGTATTTTTTTACACAAATACAAAAAATCGG‑GATGGCGTGATGAGTGGAAATAAAAAAAAACaatcagg                                                                                           >  2:940270/1‑134 (MQ=255)
                                                      tGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTTTGACAAATACAAAAACAGGA‑GGTGCCCTGATGAGGGAAAGTAATAAGAAAAAAGCAGAGAaaaa                                                                                     >  2:95955/1‑140 (MQ=255)
                                                      tGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGA‑GTTGCCATGATGAGCGAAAAAAATAAACAACAGGCAGTGAATaa                                                                                     >  1:320769/1‑140 (MQ=255)
                                                         tAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGtt                                                                                  <  1:940270/140‑1 (MQ=255)
                                                            ttACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGAc                                                                               <  1:844569/140‑1 (MQ=255)
                                                                atatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACAAAAACAAAAAATAGA‑GTTGCCATGATGAGGGAAAATAAAAAACAAAAAGCAGAGAAAAAAGTGAAagag                                                                           >  2:257945/1‑140 (MQ=255)
                                                                  atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt                                                                         <  1:153391/140‑1 (MQ=255)
                                                                            gCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGGTTGCC‑TGATGAGGGAAAGAAATAAAAAACAAACAGTGAATAAATTGACAGAGATTGTCGCTAAc                                                               >  2:15444/1‑140 (MQ=255)
                                                                                      aaaaaCCACATTTTTAGTGTTAGTTTGTGGCGGTAATTTTTTCCAGAAAAATAAAAAAACTGGA‑GTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCa                                                     <  2:230843/139‑1 (MQ=255)
                                                                                          aCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAt                                                 <  1:358266/140‑1 (MQ=255)
                                                                                           ccACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGA‑GGTGGCATGATGAGCGAAAGTAAAAAACAACAAGCAGTGAATAAATTGACAGAGAATGTCGCTAACTTTAACGCCATGAtt                                                >  2:722224/1‑140 (MQ=255)
                                                                                            cacaTTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGACAAAAAAAAAAAATGGA‑GTTGCCCAGATGAGCGAAAGGAAAAAACAAAAGGCAGTGAATAAATTTAAAAAGATTGTCGCTAAATTTACCCCCATGAatt                                               >  2:358266/1‑140 (MQ=255)
                                                                                               aTTTTTAGTGGTAGTTTGTGGCGGGGAATTTTTTCAGACAAAAAAAAAAAAAGGA‑GTTGTCATGATGAGGGAAAGGAAAAAACAACAAGCAGTGAATAAATTGACAGAGAATTTTGCTAAATTTACCGCCCTGAtttttt                                            >  2:20570/1‑137 (MQ=255)
                                                                                                    tAGTGGTAGTTTGTGGCGGTGATTTTTTCCAGACAAATAAAAAAACTGGA‑GTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTAAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGa                                       <  1:95955/140‑1 (MQ=255)
                                                                                                     aGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa                                      <  1:256607/140‑1 (MQ=255)
                                                                                                     aGTGGTAGTTTGTGGCGGTAAATTTTTCCAGAAAAATAAAAAAACTGGA‑GTTGCCATGATGAGCAAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa                                      <  2:196300/140‑1 (MQ=255)
                                                                                                      gTGGTAGTTTGTGGCGGTGGATTTTTTCCGACAAAAAAAAAAAATAGA‑GGTGGCCTGATGTGCGGAAGGAATAAGGAACAGGCGGTGAAAAAATTGACAGAGAATGTCGCTAACTTTACCGCCATGATTTTTACCCCaaa                                     >  2:925101/1‑139 (MQ=255)
                                                                                                        ggTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGA‑GTTGGCATGATGAGGGAAAAGAATAAACAAAAAGCAGTGAAAAAGTTGACAAAGATTGTTGCTAACTTTACCGCCCTGATTTTTACCCCAAAGc                                   >  2:530929/1‑140 (MQ=255)
                                                                                                         gTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAAAAAAAAATGGA‑GGTGCCATGATGAGGGGAAGTAATAAACAAAAAGCAGGGAAAAAGATGACAGAGATTGTTGCTTAATTTACCGCCCTGATTTTTTCCCGAATGcc                                  >  2:256607/1‑140 (MQ=255)
                                                                                                              ttgggacGGTTAATTTTCCAAGAAAAATACAAAATCTGGA‑TTTGCAATGGTGGACAAAATAAATAAGCAAAAGTCAGTAAATAAGTAGACAGAGTTTGTCGACAATTTTACCGCCATGATTTCTACCCGAATGCCtgatg                             <  2:639147/134‑1 (MQ=255)
                                                                                                                   gCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtg                        <  2:328940/140‑1 (MQ=255)
                                                                                                                   gCGGTAATTTTTCCCAGAAAAATACAAAACCGGGA‑GTTGCCATGATGAGCAAAAGTAAAAAGCAACGGGGAGTAAAAATGTTGACAGAGATTGTCGCAAATTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgtg                        <  2:264331/140‑1 (MQ=255)
                                                                                                                      gTGAATTTTTTCACACAAATAAAAAAAATGGA‑GTTGGCATGATGAGCGAAAAAAATAAACAAAAGGCAGGGAATAAGTTGACAGAGAATGTTGCTAACTTTACCGCCCTGATTTTTACCCGAATGCCTGATGACgtggtg                     >  2:899503/1‑140 (MQ=255)
                                                                                                                        gAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa                   <  1:784895/140‑1 (MQ=255)
                                                                                                                        gAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa                   <  2:278533/140‑1 (MQ=255)
                                                                                                                                  aGACAAATAAAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTaaaa         <  1:731040/140‑1 (MQ=255)
                                                                                                                                   gACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAAc        >  2:571999/1‑140 (MQ=255)
                                                                                                                                      aaaTACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGc     >  2:173471/1‑140 (MQ=255)
                                                                                                                                      aaaTACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGc     >  2:444407/1‑140 (MQ=255)
                                                                                                                                         tACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTaa  >  1:266447/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                            
CCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGA‑GTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGATAAACTAAAACAGCTAA  >  NC_000913/3206307‑3206583

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: ‑