Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273324,0330TG60.0% 5.0 / 10.2 15T138P (ACC→CCC) betBbetaine‑aldehyde dehydrogenase
Reads supporting (aligned to +/- strand):  ref base T (2/4);  new base G (9/0);  total (11/4)
Fisher's exact test for biased strand distribution p-value = 1.10e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.08e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

AGCGCCGGGGCGGATTTCCACAGGGCAATCTGGATCGGGTAGTTCCATGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGTATACACAAAGGACGTTTCACGCAACGGGATCTGGCTGCCTTCCAGCGCCGGGATCAGCCCGGCGTAGTACTCCAGCACGTCCGC  >  NZ_CP009273/323945‑324117
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aGCGCCGGGGCGGATTTCCACAGGGCAATCTGGATCGGGTAGTTCCATGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGta                                                                                     <  1:9367/90‑1 (MQ=255)
                   acaGGTCAATCTGGGTGGGGTAGTTCCACGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGTATACACAAAGGACGTTTCAc                                                                  <  2:386921/90‑1 (MQ=255)
                                gATCGGGTAGTTCCATGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGGATACACAAAAGACGGTTTACCCAACCGGGTCTg                                                     >  2:254889/1‑90 (MQ=255)
                                     ggTAGTTCCATGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGGATACACAAAAGACGCTTTACCCCACGGGGTCTTGCGGc                                                >  2:266123/1‑90 (MQ=255)
                                              aTGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGtat                                                                                    >  2:504290/1‑45 (MQ=255)
                                              aTGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGtat                                                                                    <  1:504290/45‑1 (MQ=255)
                                              aTGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGTATACACAAAGGACGTTTCACGCAACGGGATCTGGCTGCCTTCCAgcg                                       >  1:121835/1‑90 (MQ=255)
                                              aTGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGGATACCCAAAAGACGTTTCACCCAACCGGAGCTGGGTGCCGTTCAgcg                                       >  2:452142/1‑90 (MQ=255)
                                              aTGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGGATACACAAAGGACGTTTCACGCAACGGGGTCTGGCTGCCTTCCAgcg                                       >  1:133929/1‑90 (MQ=255)
                                              aTGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGGATACACAAAGGACGTTTCACCCAACGGGATCTGGCTGCCTTCCAgcg                                       >  1:442409/1‑90 (MQ=255)
                                                gcgcCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGTATACACAAAGGACGTTTCACGCAACGGGATCTGGCTGCCTTCCAGCGcc                                     <  2:473995/90‑1 (MQ=255)
                                                   ccAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGTCTACACAAAAGACGCTTCACCCAACCGGCGCTGGGGGCCCTCCTACGCCtgg                                  >  2:263255/1‑90 (MQ=255)
                                                      aTCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGGATACACAAAAGACGTTTTACGCCACCGGGTCTTGCTGCCTTCCCGCCCCGGGGTc                               >  2:149661/1‑90 (MQ=255)
                                                           tGCCACTACGCCCAGCGGTTCGCGGCGGGTATACACAAAGGACGTTTCACGCAACGGGATCTGGCTGCCTTCCAGCGCCGGGATCAGccc                          <  1:32675/90‑1 (MQ=255)
                                                           tGCCACTACGCCCAGCGGTTCGCGGCGGGGATACACAAAAGACGTTTCCCGCCACGGGGTCTGGCTGCCCTCCAGCGCCGGGGTCAGccc                          >  2:455465/1‑90 (MQ=255)
                                                                  aCGCCCAGCGGTTCGCGGCGGGGATACACAAAGGACGTTTCACCCAACGGGATCTGGCTGCCCTCCAGCGCCGGGGTCAGCCCCGCggag                   >  1:498944/1‑90 (MQ=255)
                                                                          cGGTTCGCGGCGGGGATACACAAAAGACGTTTCACCCAACCGGATCTGGCCGCCCTCCCGCGCCGGGGGCAGCCCCGCGGAGTACTcccg           >  2:375344/1‑88 (MQ=255)
                                                                                   gcggGTATACACAAAGGACGTTTCACGCAACGGGATCTGGCTGCCTTCCAGCGCCGGGATCAGCCCGGCGTAGTACTCCAGCACGTCCGc  <  2:498944/90‑1 (MQ=255)
                                                                                        |                                                                                    
AGCGCCGGGGCGGATTTCCACAGGGCAATCTGGATCGGGTAGTTCCATGCGCCAATCCCTGCCACTACGCCCAGCGGTTCGCGGCGGGTATACACAAAGGACGTTTCACGCAACGGGATCTGGCTGCCTTCCAGCGCCGGGATCAGCCCGGCGTAGTACTCCAGCACGTCCGC  >  NZ_CP009273/323945‑324117

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑