Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273210,0430TG58.3% 7.1 / 10.4 12V409G (GTA→GGA) tilStRNA lysidine(34) synthetase TilS
Reads supporting (aligned to +/- strand):  ref base T (1/4);  new base G (7/0);  total (8/4)
Fisher's exact test for biased strand distribution p-value = 1.01e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.93e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TGGGCGTGCCGCCGTGGCTACGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGTATTTGTGACGCAAGAAGGTGTGGCTGAAGGTGAGAATGGCGTAAGTTTTGTCTGGCAGAAAACGCTTAGTTAAGTGAAAGCC  >  NZ_CP009273/209968‑210125
                                                                           |                                                                                  
tGGGCGTGCCGCCGTGGCTACGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGTATTTGTGACGCaag                                                                      <  1:58433/90‑1 (MQ=255)
      tGCCGCCGTGGCTACGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGTATTTGTGACGCAAGAAGgtg                                                                <  1:101150/90‑1 (MQ=255)
      tGCCGCCGTGGCTACGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGACGCAAGAAgggg                                                                >  2:324094/1‑88 (MQ=255)
             gTGGCTACGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGTATTTGTGACGCAAGAAGGTGTGGCTGa                                                         <  1:90198/90‑1 (MQ=255)
                    cGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGGCGCAAGAAGGGGTGGCTGGAGGGgag                                                  >  2:267745/1‑90 (MQ=255)
                             acGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGACGCAAGAAGGGGTGGCTGAAGGTGAGAATGGCGTa                                         >  2:1831/1‑90 (MQ=255)
                                   ctgctgTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGACGCAAGAAGGTGTGGCTGAAGGGGAGAATGGCGTAAGtttt                                   >  2:276852/1‑90 (MQ=255)
                                       tgTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGTATTTGTGACGCAAGAAGGTGTGGCTGAAGGTGAGAATGGCGTAAGTTTTGTCt                               <  2:372408/90‑1 (MQ=255)
                                             aTGGCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGACGCAAGAAGGTGTGGCTGAAGGTGAGAATGGCGTAAGTTTTGTCTGGCAGa                         >  1:201845/1‑90 (MQ=255)
                                             aTGGCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGACGCAAGAAGGTGTGGCTGAAGGGGAGAATGGCGTAAGTTTTGTCTGGCAGa                         >  2:15299/1‑90 (MQ=255)
                                               ggCGAAACGCTGATTGCGGCGGCAGGGGGATTTGTGAGGCAAGAAGGGGTGGCTGAAGGGGAGAATGGCGTAAGTTTTGTCTGGCCGaaa                       >  1:241050/1‑90 (MQ=255)
                                                                    gcAGGGGTATTTGTGACGCAAGAAGGTGTGGCTGAAGGTGAGAATGGCGTAAGTTTTGTCTGGCAGAAAACGCTTAGTTAAGTGAAAGcc  >  1:378453/1‑90 (MQ=255)
                                                                           |                                                                                  
TGGGCGTGCCGCCGTGGCTACGTGACACCACGCCACTGCTGTTTTATGGCGAAACGCTGATTGCGGCGGCAGGGGTATTTGTGACGCAAGAAGGTGTGGCTGAAGGTGAGAATGGCGTAAGTTTTGTCTGGCAGAAAACGCTTAGTTAAGTGAAAGCC  >  NZ_CP009273/209968‑210125

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑