Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273349,9990TG58.3% 2.2 / 12.2 12V528G (GTG→GGG) prpEpropionate‑‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base T (0/5);  new base G (7/0);  total (7/5)
Fisher's exact test for biased strand distribution p-value = 1.26e-03
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.

GCCGGGCATCGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGATCGTGATGTGGCGCACTCG  >  NZ_CP009273/349917‑350087
                                                                                  |                                                                                        
gCCGGGCATCGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGAt                                                                                   <  2:358379/90‑1 (MQ=255)
         cGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGaaa                                                                          <  1:147133/90‑1 (MQ=255)
              ggggACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGGAAGATGGGCTGAAAGGGCa                                                                     >  1:65738/1‑90 (MQ=255)
                        gagaTTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGGGGGTGGGGGGGAAGATGGGCTGAAAAGGGAgggggggggg                                                           >  1:187697/1‑88 (MQ=255)
                                   gagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGAAAGATGCGCTGAAAGGGGAGGGGGGGGGGGGGGTTGTCAt                                                >  2:135121/1‑90 (MQ=255)
                                   gagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGGGGTTGGGGGGAAAGATGGGCTGAAAGGGGAGGGGGGGGGGGGGGTTGTTAt                                                >  2:148821/1‑90 (MQ=255)
                                   gagTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGGGGGTGGGGGGGAAGATGGGCTGGAAGGGGAGGGGGGGGGGGGGGTTGttct                                                >  2:100028/1‑87 (MQ=255)
                                        tctcCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGAAAAATGCGCTGGAAGGGGAGGGGGCGGGGGCGGTTGTCATTTCGa                                           >  1:371278/1‑90 (MQ=255)
                                             aGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGAAAGATGCGCTGAAAAGGCAGGTGGGGGGGGGGTTTGTCATTTCGAAagag                                      >  1:360483/1‑90 (MQ=255)
                                                   ccGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTTAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGAc                                <  1:182472/90‑1 (MQ=255)
                                                             ccGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAg                      <  2:360483/90‑1 (MQ=255)
                                                                                 gTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGATCGTGATGTGGCGCACTCg  <  2:405588/90‑1 (MQ=255)
                                                                                  |                                                                                        
GCCGGGCATCGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAGATCGTGATGTGGCGCACTCG  >  NZ_CP009273/349917‑350087

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑