Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24401,113,7580CG38.2% 74.2 / 19.3 56F49L (TTC→TTG) lptFLipopolysaccharide export system permeaseprotein LptF
Reads supporting (aligned to +/- strand):  ref base C (5/29);  new base G (21/0);  total (27/29)
Fisher's exact test for biased strand distribution p-value = 7.81e-11
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TCGTTATCTGTCCCGCGAGGTCCTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAG  >  KT2440/1113623‑1113892
                                                                                                                                       |                                                                                                                                       
tCGTTATCTGTCCCGCGAGGTCCTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTcc                                                                                                                                        <  2:89180/137‑1 (MQ=255)
   ttATCTGTCCCGCGAGGTCCTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGa                                                                                                                                     <  3:57173/137‑1 (MQ=255)
             cgcgAGGTCCTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGGGTTGCGGAGCAAGGGCtt                                                                                                                           >  1:129712/1‑137 (MQ=255)
              gcgAGGTCCTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTc                                                                                                                          <  6:431916/137‑1 (MQ=255)
                      cTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGcc                                                                                                                 <  7:304102/137‑1 (MQ=255)
                       tGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATAATGGGCGTCCGC‑GTGccc                                                                                                                >  8:336706/1‑136 (MQ=255)
                       tGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGCGGCTCATGGGCGTCCGC‑TTGGCa                                                                                                                >  4:45962/1‑137 (MQ=255)
                        gttCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAg                                                                                                               <  6:251280/135‑1 (MQ=255)
                        ggTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TCGCCAg                                                                                                               <  6:205860/137‑1 (MQ=255)
                         gTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGCGGATCATGGGCTTACGC‑TTGCCAgg                                                                                                              >  2:367011/1‑137 (MQ=255)
                          tCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGCTGATCATGGGCTTCCGC‑TTGCCAggg                                                                                                             >  5:167289/1‑136 (MQ=255)
                                 gAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGAGGCGCAAGGGCGTCCGC‑GTGCCAGGCGTCCGGc                                                                                                      >  2:252607/1‑137 (MQ=255)
                                 gAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTCCTGATCATGGGCTTCCGC‑TTGCCCGGCGTCCTGc                                                                                                      >  4:439129/1‑137 (MQ=255)
                                        gTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGAt                                                                                               <  1:144578/137‑1 (MQ=255)
                                           aGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTGCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGCTTCt                                                                                            >  2:3596/1‑137 (MQ=255)
                                           aGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGCTGTTAGAGGGGTTACGCGTTGCC‑GGCTTGCTGGAACAGATTCt                                                                                            >  2:380929/1‑137 (MQ=255)
                                           aGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGCGGATCATGGGGTTGCGC‑TTGCCAGGCGTGCTGGAACTGAttat                                                                                            >  5:129857/1‑135 (MQ=255)
                                           aGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCGTACTGCAACTGAttat                                                                                            >  6:189503/1‑135 (MQ=255)
                                                  tgctgtTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTg                                                                                     <  3:439129/137‑1 (MQ=255)
                                                   gctgtTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTgg                                                                                    <  3:317349/137‑1 (MQ=255)
                                                     tgtTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTGCTGATCATGGGCTTCCGC‑TTGCCAGGCTTACTGCAACTGATTATTCCTCTgggg                                                                                  >  5:254855/1‑137 (MQ=255)
                                                     tgtTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTGCTGATCATGGGCTTACGC‑TTGCCAGGCTTCCTGCCACTGATTATGCCTCTgggg                                                                                  >  6:192302/1‑137 (MQ=255)
                                                     tgtTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTgggg                                                                                  >  6:199662/1‑137 (MQ=255)
                                                     tgtTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTgggg                                                                                  <  7:9139/137‑1 (MQ=255)
                                                          gTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGtt                                                                             <  1:395506/137‑1 (MQ=255)
                                                              tcatcaTGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCGCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTc                                                                         <  7:317342/137‑1 (MQ=255)
                                                              tcatcaTGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTc                                                                         <  2:364714/137‑1 (MQ=255)
                                                              tcatcaTGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTc                                                                         <  1:34124/137‑1 (MQ=255)
                                                              tcatcaTGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTTTTGCGTTTCATGTGCTTACGC‑TTGCCAGGCTTCCTGGAACTGATTATGGCTCTGGGGCTGTTGCTc                                                                         >  3:407498/1‑137 (MQ=255)
                                                               catcatGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCg                                                                        <  3:45962/137‑1 (MQ=255)
                                                               catcatGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCg                                                                        <  1:411734/137‑1 (MQ=255)
                                                               catcatGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTGCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCg                                                                        >  8:145287/1‑137 (MQ=255)
                                                                    tGAGCGGGCGCTTCATCAAGTACCTGGCCAAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTGCTGATCATGGGCTTACCC‑TTGCCAGGCTTGCTGAAACTTTTTTTGGCTCTGGGGCTGTTACTAGGAAtt                                                                   >  6:362142/1‑136 (MQ=255)
                                                                           gcgcTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTACTGATAATGGGCTTACGC‑TTTCCAGGCTTCCTGCAACAGATTCTGCCTCTGGGGGTGTTACTCGGCATCCTCCTgg                                                            >  2:422298/1‑137 (MQ=255)
                                                                             gcTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGGTGCTGATCATCGGCTTACGC‑ATGCCAGGCTTCCAGCAACTGATTATTCCTCTTGGGCTGTTCATCGGCATCATCCAGGcg                                                          >  6:334010/1‑136 (MQ=255)
                                                                               ttCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTGCTGATCATGGGGTTGCGC‑TTGCCCGGCTTCCTGCAACTGATTATTCCTCTGGGGCTGTTCCTCGGCATACTCCAggggtt                                                        >  8:325552/1‑133 (MQ=255)
                                                                                    aaaGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGgc                                                   <  8:115866/136‑1 (MQ=255)
                                                                                      aGTACCTGGCCCAGTCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATGATGGGCTTCCGC‑TTGCCAGTCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGgcgc                                                 <  2:43787/137‑1 (MQ=255)
                                                                                             ggCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATGATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTAcc                                          <  7:256134/137‑1 (MQ=255)
                                                                                               cccAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTg                                        <  6:19448/137‑1 (MQ=255)
                                                                                               cccAGGCTGCCAAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGTCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTTTCTTAATTTCGCCTGTACCTg                                        <  5:362142/137‑1 (MQ=255)
                                                                                                 cAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGa                                      <  7:132366/137‑1 (MQ=255)
                                                                                                 cAGGCTGCCCAGGGCGTGCTCGACCCGGGCGGGTTGTTGCTGATCATGGGCTTACGC‑TTGACAGGCTTCCTGAAAAGGATTAAGCCTATGGGGGTGTTCCTCGGCATACACCTGGCCTAAGGGCGCCGTTAACTGGa                                      >  8:327100/1‑137 (MQ=255)
                                                                                                     cTGCCCAGGGCGTGCTCGACCCGGGCGTGGTGTTCCTGATCCTGGGCTTGCGC‑TTGCCACGCGTCCGGCAACTGCTTCTGGCTCTGGGGCGGGTCCTCCGCATACTCCTGGCGTACGGGGGCCTGGACCTGGAAAGc                                  >  8:69719/1‑137 (MQ=255)
                                                                                                            gggcgggcTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACGTGGAAAGCGAGATGa                           <  5:5693/137‑1 (MQ=255)
                                                                                                            gggCGTGCTCGACCCGGGCGTGTTGTTGGTGATAATGGGGGTACCC‑GTTCAAGGCGTCGTGCCAATGATTATGCAGCTGGGGCTGTTCCTCGGCATCCTCAGGGCGTACGGGCGCCGGGACCAGGAAAGCgagaagt                           >  2:398692/1‑134 (MQ=255)
                                                                                                                gTGCTCGACCCGGGCGTGTTGTTGCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCGCTGGGGCTGTTGCTCGGCCTCCTCCGGGGTTACGGGCGCCGGTACCGGGAAAGCGAGCTGACCgg                       >  8:278585/1‑136 (MQ=255)
                                                                                                                     cGACCCGGGCGTGTTGTTGCTGCTCATGGGCTTGCGC‑GTGCCCCGCTGGCTGCCACTGATTATGCCTCTGGGGGGGTTCCTCGGGATCATCCTGGCTTTAGGGGGCCTGTTCATGGGGAGCGAGATGACCTTGCTGt                  >  6:258119/1‑137 (MQ=255)
                                                                                                                     cGACCCGGGCGTGTTGTTGCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTATTCCTCTGGGGCTGTTACTCGGCATCCTCCAGGGTTACGGGCGCCGGTAACTGGAAAGCGAGATGACCGTGCTGt                  >  6:401238/1‑137 (MQ=255)
                                                                                                                     cGACCCGGGCGTGTTGTTGCTGATCATGGGCTTACGC‑TTGCCAGGCTTGCTGCAACTGATTCTGCCTCTGGGGGGGTTGCTCGGCCTACTCCTTGGGTTCGGGCGCCGGTACCTGGAAAGCGAGATGACCGGGCTGt                  >  4:42807/1‑137 (MQ=255)
                                                                                                                         ccGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGc              <  5:199662/137‑1 (MQ=255)
                                                                                                                         ccGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGc              <  5:192302/137‑1 (MQ=255)
                                                                                                                         ccGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGc              <  4:417194/137‑1 (MQ=255)
                                                                                                                              ggtgtTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTg         <  2:13155/136‑1 (MQ=255)
                                                                                                                              ggtgtTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTg         <  1:367011/136‑1 (MQ=255)
                                                                                                                              cGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTg         <  2:258580/137‑1 (MQ=255)
                                                                                                                                     ttCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATGCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAg  <  5:6959/137‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                       
TCGTTATCTGTCCCGCGAGGTCCTGGTCACCTTGAGCGCCGTCAGCGCTGTGCTGTTGGTGATCATCATGAGCGGGCGCTTCATCAAGTACCTGGCCCAGGCTGCCCAGGGCGTGCTCGACCCGGGCGTGTTGTTCCTGATCATGGGCTTCCGC‑TTGCCAGGCTTCCTGCAACTGATTCTGCCTCTGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAG  >  KT2440/1113623‑1113892

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑