Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273240,1990GT60.0% 5.6 / 11.4 10C57F (TGC→TTC) lpcAD‑sedoheptulose 7‑phosphate isomerase
Reads supporting (aligned to +/- strand):  ref base G (1/3);  new base T (6/0);  total (7/3)
Fisher's exact test for biased strand distribution p-value = 3.33e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.23e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CACGCCATTCAGCGCGCGGCGGTCCTGTTAGCAGACAGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTCCCATTGCGACGCTATGCACTTTGCCGAAGAGTTGACCGGTCGCTACCGTGAAAACCGTCCGGGCTACCCGGCGATTGCTATTTCTGA  >  NZ_CP009273/240111‑240280
                                                                                        |                                                                                 
cACGCCATTCAGCGCGCGGCGGTCCTGTTAGCAGACAGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTCCCATTGc                                                                                  <  2:43675/90‑1 (MQ=255)
           gcgcgcGGCGGTCCTGTTAGCAGACAGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTCCCCTTTCGACGCCATGCa                                                                       >  2:95502/1‑90 (MQ=255)
              cgcgGCGGTCCTGTTAGCAGACAGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTTCCCTTTCGACGCCATGGACtt                                                                    >  2:204265/1‑90 (MQ=255)
                cggcggTCCTGTTAGCAGACAGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGGTCCCATTTCGACGCTATTCACtttt                                                                  >  2:212217/1‑89 (MQ=255)
                                    aGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTCCCATTTCGACGCTATGCACTTTGCCGGAGAGTTGACCCGTCGc                                              >  2:118054/1‑90 (MQ=255)
                                               cGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTTCCCTTTCGACGCTATGCACTTTTCCGAAGAGGTGACCGGGCGCTACCCTGaaaa                                   >  1:132855/1‑90 (MQ=255)
                                                           gCTTTCCTGCGGCAACGGCAGTTCCCATTGCGACGCTATGCACTTTGCCGAAGTGTTGACCGGGGGCTACCGTGAAAACCGTCCGGGCTa                       >  1:182554/1‑90 (MQ=255)
                                                                     ggCAACGGCGGTTCCCCTTTCGACGCTATTCACTTTTCCGAAGAGATTAACGGTCGCCACCGCGAAAAACGGCCCGGGTACCCCGCGGtt             >  2:185185/1‑90 (MQ=255)
                                                                        aaCGGCGGTTCCCATTGCGACGCTATGCACTTTGCCGAAGAGTTGACCGGTCGCTACCGTGAAAACCGTCCGGGCTACCCGGCGATTGCt          <  1:60966/90‑1 (MQ=255)
                                                                                ttCCCATTGCGACGCTATGCACTTTGCCGAAGAGTTGACCGGTCGCTACCGTGAAAACCGTCCGGGCTACCCGGCGATTGCTATTTCTGa  <  1:185185/90‑1 (MQ=255)
                                                                                        |                                                                                 
CACGCCATTCAGCGCGCGGCGGTCCTGTTAGCAGACAGCTTTAAAGCCGGTGGCAAAGTGCTTTCCTGCGGCAACGGCGGTTCCCATTGCGACGCTATGCACTTTGCCGAAGAGTTGACCGGTCGCTACCGTGAAAACCGTCCGGGCTACCCGGCGATTGCTATTTCTGA  >  NZ_CP009273/240111‑240280

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑