Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273700,9960CA50.0% 23.7 / 16.5 26P533T (CCG→ACG) nagEPTS N‑acetyl glucosamine transporter subunit IIABC
Reads supporting (aligned to +/- strand):  ref base C (2/11);  new base A (13/0);  total (15/11)
Fisher's exact test for biased strand distribution p-value = 2.02e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GATTACCGGTGATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAACACCAACCACGCGTTCTGCCTGGAAACCGAAAAA  >  NZ_CP009273/700911‑701085
                                                                                     |                                                                                         
gATTACCGGTGATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGAc                                                                                       <  1:344154/90‑1 (MQ=255)
 aTTACCGGTGATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGGAAACGACa                                                                                      >  2:727567/1‑90 (MQ=255)
         tGATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAAt                                                                              <  2:109094/90‑1 (MQ=255)
          gATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAAACGACAGATAAAAtc                                                                             >  1:337539/1‑90 (MQ=255)
          gATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGCGGAAACGCCAGATaaaagc                                                                             >  2:467410/1‑88 (MQ=255)
               cGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATcgtcgt                                                                        <  2:504774/90‑1 (MQ=255)
                        ggATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAAACGACAGATAAAAAAGTCGTATCACCAGc                                                               >  2:300813/1‑90 (MQ=255)
                            cAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCa                                                           <  1:285670/90‑1 (MQ=255)
                                  ccTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGGAAACCACAGATAAAAACGTCGTATCACCCCCCCCCGGGACa                                                     >  2:68324/1‑90 (MQ=255)
                                  ccTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAAACGTCGTATCACCAGCCGCAGGGGCa                                                     >  1:14086/1‑90 (MQ=255)
                                  ccTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAAACCACAGATAAAAAAGTCGTATTACCCGCCGCAGGGGCa                                                     >  2:144069/1‑90 (MQ=255)
                                    tGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGAAAACGACAAAAAAAAAAGTCGGATCACCAGCCGCCGGGGCaaa                                                   >  2:761546/1‑89 (MQ=255)
                                       cGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGt                                                <  1:477604/90‑1 (MQ=255)
                                        gAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCCACAGATAAAAACGGCGTATCACCAGCCGCCGGGACAAACggg                                               >  1:367008/1‑88 (MQ=255)
                                        gAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGAAAACCACAGATAAAAACGGCGGATCACCAGCCGCAGGGGCAATAGTg                                               >  2:494240/1‑90 (MQ=255)
                                         aaGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGGAAACCACCGATAAAAAAGTCGGATCACCCGCCGCGGGGGCAAACGTGa                                              >  2:578398/1‑90 (MQ=255)
                                          aGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGaa                                             <  2:732451/90‑1 (MQ=255)
                                            cATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGaaaa                                           <  1:462743/90‑1 (MQ=255)
                                            cATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGaaaa                                           <  2:523635/90‑1 (MQ=255)
                                                cGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCtt                                       <  1:82350/90‑1 (MQ=255)
                                                  ccAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCa                                     <  1:195075/90‑1 (MQ=255)
                                                    aGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAac                                   <  1:727567/90‑1 (MQ=255)
                                                     gCAAAGCGGTGGGTGACGGTGTGGCGGTGAAAACGACAGATAAAATCCTCCTATCACCACCCCCAGGGACGAACGGGAAAATCTTCaaaa                                  >  2:872405/1‑88 (MQ=255)
                                                                    aCGGTGTGGCGGTGAAAACGACAAATAAAAAAGTCGTATCCCCAACCCCCGGGGCAAACGGGAAAAAATTTAACACCCACCCcgcggttt                   >  1:807829/1‑86 (MQ=255)
                                                                       gtgtGGCGGTGAAAACGACAGATAAAATCGTCGTATCACCAGCCCCAGGGGCAAACGTGAAAATCTTCAACACCAACCACGCGTTCTGcc                >  1:808209/1‑90 (MQ=255)
                                                                       gtgtGGCGGTGAAAACGACAGATAAAAACGGCGTATCACCCGCCGCAGGGGCAAACGGGAAAAACTTCAACACCAACCACCCGTTCTGcc                >  2:174723/1‑90 (MQ=255)
                                                                                     ccGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAACACCAACCACGCGTTCTGCCTGGAAACCGaaaaa  <  1:283448/90‑1 (MQ=255)
                                                                                     |                                                                                         
GATTACCGGTGATGTCGTGGCACTGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAACACCAACCACGCGTTCTGCCTGGAAACCGAAAAA  >  NZ_CP009273/700911‑701085

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑