Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,498,4470CT56.0% 2.9 / 28.3 25S311S (TCG→TCA) yhfSaminotransferase class I/II‑fold pyridoxal phosphate‑dependent enzyme
Reads supporting (aligned to +/- strand):  ref base C (3/8);  new base T (14/0);  total (17/8)
Fisher's exact test for biased strand distribution p-value = 1.53e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.62e-04
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TTAATGCGAATCGCACAATGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGTAAGGCAAGGCACCGCGCTTTTGCGCCTCTTCCAG  >  NZ_CP009273/3498358‑3498500
                                                                                         |                                                       
ttAATGCGAATCGCACAATGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTc                                                         <  1:514385/90‑1 (MQ=255)
        aaTCGCACAATGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTTATATTTTGACTCTGc                                                 >  1:541581/1‑90 (MQ=255)
         aTCGCACAATGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGca                                                <  2:466477/90‑1 (MQ=255)
              cagaTGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGca‑ccca‑c                                         <  1:422131/87‑1 (MQ=255)
              acaATGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGca‑ccca‑c                                         <  1:585546/90‑1 (MQ=255)
                 aTGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCgg                                      >  1:499662/1‑90 (MQ=255)
                   gTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGt                                    <  1:455683/90‑1 (MQ=255)
                   gTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGt                                    <  2:175661/90‑1 (MQ=255)
                   gTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGt                                    <  2:378789/90‑1 (MQ=255)
                     tCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGTaa                                  <  1:249265/90‑1 (MQ=255)
                      cTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTTTTTTTTGACTCTGCA‑CCCC‑CCCGGGaag                                 >  2:585546/1‑90 (MQ=255)
                      cTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTTTATTTTGACTCTGCC‑CCCC‑CCcggggag                                 >  2:190960/1‑86 (MQ=255)
                      cTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTTTATTTTGACTCCGCC‑CCCC‑CCGGGTgag                                 >  2:248608/1‑90 (MQ=255)
                       tGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTATATTTTGACTCTGCA‑CCCC‑CCCGGGaagg                                >  2:492380/1‑90 (MQ=255)
                        gATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTTTATTTTGACTCTTCACCCCC‑CCGGGAaagg                                >  2:297729/1‑90 (MQ=255)
                           tgtgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTATATTTTGACTCTGCA‑CCCC‑CCCGggaagggaag                            >  1:173063/1‑90 (MQ=255)
                           tgtgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTATATTTTGACTCTGCA‑CCCACCCGggaaaggaaa                             >  1:699107/1‑90 (MQ=255)
                           tgtgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGGTTTTTATTTTTACCCCTCA‑CCCACCCGggaaaggaaa                             >  2:357056/1‑90 (MQ=255)
                           tgtgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTTATATTTTGTCTCTTCA‑CCCC‑CCCGggaagggaag                            >  1:599501/1‑90 (MQ=255)
                           tgaggATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTATATTTTGACTCTGCC‑CCCA‑CCCgggaagggaaa                            >  1:626281/4‑89 (MQ=255)
                            gtgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGTaaggcaagg                           >  1:59842/1‑90 (MQ=255)
                             tgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTTTATTTTTTCTCTTCC‑CCCC‑CCGGGGaaggcacagg                          >  2:697298/1‑86 (MQ=255)
                             tgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTTTTATTTTTACTCTTCA‑CCCC‑CCCGGGaaaggaaggg                          >  2:81384/1‑89 (MQ=255)
                             tgGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTTGACTCTGCA‑CCCA‑CCGGGTaaagcaaggc                          >  1:128079/1‑90 (MQ=255)
                                        ggCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGGTTTCATATTTCGACTCTGCC‑CCCA‑CCGGGGAAGGGAAGGGACCGCGCtttt               >  1:364358/1‑90 (MQ=255)
                                                     ggAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGTAAGGCAAGGCACCGCGCTTTTGCGCCTCTTCCAg  <  2:59842/90‑1 (MQ=255)
                                                                                         |                                                       
TTAATGCGAATCGCACAATGTTCTGATTGTGGATTCGCCTGGCGAAACGTTCCGGAAAGGCGATAAAAGAGCGGCGGGATTTCATATTTCGACTCTGCA‑CCCA‑CCGGGTAAGGCAAGGCACCGCGCTTTTGCGCCTCTTCCAG  >  NZ_CP009273/3498358‑3498500

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑