Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,126,6610TG52.6% 6.5 / 24.7 19H219P (CAC→CCC) yghSdTMP kinase
Reads supporting (aligned to +/- strand):  ref base T (0/9);  new base G (10/0);  total (10/9)
Fisher's exact test for biased strand distribution p-value = 1.08e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.65e-04
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GTTAAATCATCCCCTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTGCGCCATTGAATGTCAGTTGCGGCGTAACGGCGATTTTTTCCTGTAACGCTGCCAGTT  >  NZ_CP009273/3126574‑3126745
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gTTAAATCATCCCCTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGgggt                                                                                    >  1:158961/1‑90 (MQ=255)
         tcCCCTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGCGCCCCTcc                                                                           >  1:155967/1‑90 (MQ=255)
           cccTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCCGAATTTCATCGGCGGGGTGTCGCCCATCCAg                                                                         <  2:534292/90‑1 (MQ=255)
           cccTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAg                                                                         <  1:349568/90‑1 (MQ=255)
           cccTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAg                                                                         <  2:151232/90‑1 (MQ=255)
             cTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGGGCCCCTcccggt                                                                       >  2:329161/1‑86 (MQ=255)
               aTCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGTGCCCCTCCCGGTCa                                                                     >  2:438830/1‑90 (MQ=255)
                   aTTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGTGCCCCCCCCCGTTTAAGGa                                                                 >  1:493429/1‑90 (MQ=255)
                   aTTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGCGCCCCTCCCGTTTAAGGa                                                                 >  1:499065/1‑90 (MQ=255)
                       tGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGgtg                                                                                     <  2:476388/66‑1 (MQ=255)
                       tGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGgtg                                                                                     >  1:476388/1‑66 (MQ=255)
                         gTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGCGCCCCCCCCCGTCAAAGATCtttt                                                           >  2:202265/1‑89 (MQ=255)
                            aTCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTgcgc                                                        <  1:546433/90‑1 (MQ=255)
                            aTCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTgcgc                                                        <  1:394974/90‑1 (MQ=255)
                             tCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGGGCCCCTCCCGTTCAAAGGTCTTTGCGcc                                                       >  2:457130/1‑90 (MQ=255)
                                     gcgcGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGGGCCCCCCCCGGTCAAGGGTCTTTTCGCCCTTGTATg                                               >  2:498159/1‑90 (MQ=255)
                                     gcgcGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGGCGCCCATCCAGTTTAAGGATCTTTTCGCCATTGAATg                                               >  1:347016/1‑90 (MQ=255)
                                          gcgTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTGCGCCATTGAATGTCAGt                                          <  1:234104/90‑1 (MQ=255)
                                                     gcgTAGTGACGCTTGCAGAATTTCATCGGCGGGGGGTCGCCCCTCCCGTTCAAGGATCTTTTCGCCATTGAATGTCAGTTTCGGCGTAAc                               >  1:518618/1‑90 (MQ=255)
                                                                        aTTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTGCGCCATTGAATGTCAGTTGCGGCGTAACGGCGATTTTTTCCTGTAAc            <  2:321869/90‑1 (MQ=255)
                                                                        aTTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTGCGCCATTGAATGTCAGTTGCGGCGTAACGGCGATTTTTTCCTGTAAc            <  1:498159/90‑1 (MQ=255)
                                                                                  cggGGTGTCGCCCATCCAGTTCAAGGATCTTTGCGCCATTGAATGTCAGTTGCGGCGTAACGGCGATTTTTTCCTGTAACGCTGCCAGtt  <  1:457130/90‑1 (MQ=255)
                                                                                       |                                                                                    
GTTAAATCATCCCCTATCCATTTTGGTGATCAGGAAAGCGCGGCGTGAATTGCGCGTAGTGACGCTTGCAGAATTTCATCGGCGGGGTGTCGCCCATCCAGTTCAAGGATCTTTGCGCCATTGAATGTCAGTTGCGGCGTAACGGCGATTTTTTCCTGTAACGCTGCCAGTT  >  NZ_CP009273/3126574‑3126745

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑