Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273700,9960CA64.3% ‑2.7 / 11.0 14P533T (CCG→ACG) nagEPTS N‑acetyl glucosamine transporter subunit IIABC
Reads supporting (aligned to +/- strand):  ref base C (2/3);  new base A (9/0);  total (11/3)
Fisher's exact test for biased strand distribution p-value = 2.75e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.63e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAACACCAACCACGCGTTCTGCCTGGAAACCGA  >  NZ_CP009273/700934‑701081
                                                              |                                                                                     
tGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAg                                                            >  1:407511/1‑90 (MQ=255)
aggATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAg                                                            <  1:469053/89‑1 (MQ=255)
 ggATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGGAAACGACAGGTAAAAACGTCGTATCACCAGc                                                           >  2:243656/1‑90 (MQ=255)
           ccTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGAAAACGACAGAAAAAAAAGTCGTATTACCAGCCGCAGGGGCa                                                 >  2:134246/1‑90 (MQ=255)
            cTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGGAAACGACAGAAAAAAACGTCGTATCACCAGCCGCCggggccc                                                >  2:469053/1‑86 (MQ=255)
            cTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGAAAACCACAGAAAAAAAAGTCGTATCAACAACCGCAGGGGCaa                                                >  2:244001/1‑90 (MQ=255)
                  aaGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGGGGAAACCACAGATAAAAAAGGCGGATCACCCGCCGCAGGGGCAAACGTGa                                          >  2:436791/1‑90 (MQ=255)
                     cATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAAACGACAGAAAAAAACGTCGTATCACCAGCCGCAGGGGCAAACGTGaaaa                                       >  1:361378/1‑90 (MQ=255)
                          gCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTc                                  <  2:407511/90‑1 (MQ=255)
                              gCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAAACGTCGTATCACCAGCCGCAGGGGCAATCGTGAAAATCTTCAaca                              >  1:3224/1‑90 (MQ=255)
                                   gCGGTGGGTGACGGTGTGGCGGTGAAAACGACAGATAAAAACGTCGGATCACCAGCCGCAGGGGGAAACGTGGAAAACTTTAACaccaac                         >  2:57879/1‑90 (MQ=255)
                                                gtgtGGCGGTGAAAACGACAGAGAAAATCGTCGTATCACCAGCCGCAGGGGCAAAAGTGAAAATCTTTAAAACCAACCACGCGGTCTGcc            >  1:323571/1‑90 (MQ=255)
                                                      cGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAACACCAACCACGCGTTCTGCCTGGaaa      <  1:436791/90‑1 (MQ=255)
                                                          gAAAACGACAGATAAAAACGTCGTATCACCAGCCGCAGGGGCAATCGTGAAAAACTTCAAAACCAACCACGCGTTCTGCCTGGAAAACGa  >  2:168594/1‑90 (MQ=255)
                                                              |                                                                                     
TGGATCAGGTTCCTGACGAAGCATTCGCCAGCAAAGCGGTGGGTGACGGTGTGGCGGTGAAACCGACAGATAAAATCGTCGTATCACCAGCCGCAGGGACAATCGTGAAAATCTTCAACACCAACCACGCGTTCTGCCTGGAAACCGA  >  NZ_CP009273/700934‑701081

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑