Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,754,2310GT28.6% 78.5 / 26.5 35R127S (CGC→AGC) selAL‑seryl‑tRNA(Sec) selenium transferase
Reads supporting (aligned to +/- strand):  ref base G (12/13);  new base T (5/5);  total (17/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.29e-01
Rejected as consensus: Frequency below/above cutoff threshold.

GTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAAGCT  >  NZ_CP009273/3754154‑3754319
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gTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCgtcgtc                                                                              <  2:200700/90‑1 (MQ=255)
     tGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAg                                                                           >  2:355991/1‑88 (MQ=255)
     tGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAg                                                                           <  1:355991/88‑1 (MQ=255)
          aTACAGGCATCTTCCGCCCCCGTAATACGACACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc                                                                             <  2:232645/81‑1 (MQ=255)
          aTACAGGCATCTTCCGCCCCCGTAATACGACACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTcc                                                                             >  1:232645/1‑81 (MQ=255)
                         gCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGcg                                                                                   <  2:283533/60‑1 (MQ=255)
                         gCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGcg                                                                                   >  1:283533/1‑60 (MQ=255)
                           ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   <  1:38707/90‑1 (MQ=255)
                           ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   <  1:155904/90‑1 (MQ=255)
                           ccccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   <  2:563134/90‑1 (MQ=255)
                             ccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCa                                                                       <  2:546226/68‑1 (MQ=255)
                             ccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCa                                                                       >  1:546226/1‑68 (MQ=255)
                             ccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   <  2:490250/88‑1 (MQ=255)
                             ccGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   >  1:490250/1‑88 (MQ=255)
                              cGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTcc                                                                             <  1:504768/61‑1 (MQ=255)
                              cGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTcc                                                                             >  2:504768/1‑61 (MQ=255)
                                      ggCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAg                                                                           <  1:590530/55‑1 (MQ=255)
                                      ggCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAg                                                                           >  2:590530/1‑55 (MQ=255)
                                       gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGcgt                                                                                  >  1:573853/1‑47 (MQ=255)
                                       gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGcgt                                                                                  <  2:573853/47‑1 (MQ=255)
                                       gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGcgt                                                                                  <  2:125465/47‑1 (MQ=255)
                                       gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGcgt                                                                                  >  1:125465/1‑47 (MQ=255)
                                       gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTg                                       >  1:377055/1‑90 (MQ=255)
                                       gCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTg                                       >  2:140794/1‑90 (MQ=255)
                                                 tGCACCAGCGCCCGATCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCt                             >  2:326866/1‑90 (MQ=255)
                                                              gATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCtt                <  1:221429/90‑1 (MQ=255)
                                                               aTCGCGATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTc               >  2:310977/1‑90 (MQ=255)
                                                                 cgcgATGTCCGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCg             <  1:310977/90‑1 (MQ=255)
                                                                  gcgATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   >  2:118718/1‑51 (MQ=255)
                                                                  gcgATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   <  1:118718/51‑1 (MQ=255)
                                                                         ccGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   <  1:77830/44‑1 (MQ=255)
                                                                         ccGCTTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGa                                                   >  2:77830/1‑44 (MQ=255)
                                                                         ccGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTcc              >  2:46388/1‑81 (MQ=255)
                                                                         ccGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTcc              <  1:46388/81‑1 (MQ=255)
                                                                         ccGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTaaa     >  1:226571/1‑90 (MQ=255)
                                                                            cgTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAAGCt  <  2:226571/90‑1 (MQ=255)
                                                                             |                                                                                        
GTTATTGACGATACAGGCATCTTCCGCCCCCGTAATACGGCACAGCAGCTGCGCCAGCGCCCGATCGCGATGTCCGCGTCCGGCGTCGTCCAGATCATACTCGAGGGTCACTGGCGAACGCATAGCCTGCGCAACGGCTTCCACCGCGGCTTCCGCCTGTAAAGCT  >  NZ_CP009273/3754154‑3754319

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑