Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,544,9230CA63.6% ‑4.8 / 11.2 11N177K (AAC→AAA) uxuRUxu operon transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (0/4);  new base A (7/0);  total (7/4)
Fisher's exact test for biased strand distribution p-value = 3.03e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.15e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GTTCCATCTCGCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAACAATCCAATGTGGATCCAGTTGCACAGCCATCTGGATGACAGCCTGTATCGCAAAGAGTGGTTGGGCGAT  >  NZ_CP009273/4544842‑4544992
                                                                                 |                                                                     
gTTCCATCTCGCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGGAAAAAAACCaaa                                                               >  2:184585/1‑89 (MQ=255)
 ttCCATCTCGCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAACAATCCAAtg                                                              <  1:103975/90‑1 (MQ=255)
        tcGCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAAc                                                                       <  1:200080/74‑1 (MQ=255)
        tcGCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAACAATCCAATGTGGATcc                                                       <  1:200946/90‑1 (MQ=255)
          gCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAAAAAAACAAAATGGATCCAg                                                     >  2:103975/1‑90 (MQ=255)
             aTTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAAAAAACCAAAGTGGATCCAGTTg                                                  >  1:50757/1‑90 (MQ=255)
                               aaCAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAAAAAACCAAAGTGGATCCAGTTGCACAGCCATCTGGATGAc                                >  1:30118/1‑90 (MQ=255)
                                   gCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAACAATCCAATGTGGATCCAGTTGCACAGCCATCTGGATGACAGcc                            <  2:314132/90‑1 (MQ=255)
                                   gCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAAAAAACCAATGTGGGTCCCGTTGCACAACCATCTTGGTGACAGcc                            >  1:355942/1‑90 (MQ=255)
                                      tGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAAAAAACCAAAGTGGGTCCCGTTGCACAGCCCTCTTGGTGACAACCCGt                         >  1:352500/1‑90 (MQ=255)
                                                          cAGTCCTGGCAGTGGCGGGAAAACAATCCAATGTGGATCCAGTTGCACAGCCATCTGGATGACAGCCTGTATCGCAAAGAGTGGTTGGGc     <  1:48534/90‑1 (MQ=255)
                                                             tCCTGGCAGTGGCGGGAAAAAAAACCAAAGTGGGTCCAGTTGCACAGCCATCTTGGTGAAAGCCCGTATTGCAAAAAGGGGGTGGGGGAt  >  2:168190/1‑90 (MQ=255)
                                                                                 |                                                                     
GTTCCATCTCGCTATTGCCGAAGCAACGCATAACAGCATGCTGGTGGAGCTGTTCCGTCAGTCCTGGCAGTGGCGGGAAAACAATCCAATGTGGATCCAGTTGCACAGCCATCTGGATGACAGCCTGTATCGCAAAGAGTGGTTGGGCGAT  >  NZ_CP009273/4544842‑4544992

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑