Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273349,9930TG54.5% 8.6 / 10.5 11V526G (GTT→GGT) prpEpropionate‑‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base T (1/4);  new base G (6/0);  total (7/4)
Fisher's exact test for biased strand distribution p-value = 1.52e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.05e-02
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GCCGGGCATCGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAG  >  NZ_CP009273/349917‑350067
                                                                            |                                                                          
gCCGGGCATCGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGAt                                                               <  2:358379/90‑1 (MQ=255)
         cGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGaaa                                                      <  1:147133/90‑1 (MQ=255)
              ggggACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGGTGGGGGGGAAGATGGGCTGAAAGGGCa                                                 >  1:65738/1‑90 (MQ=255)
                    gcgcgAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGtt                                                                           <  1:294047/58‑1 (MQ=255)
                    gcgcgAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGtt                                                                           >  2:294047/1‑58 (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)
                                                                            |                                                                          
GCCGGGCATCGGCTGGGGACGCGCGAGATTGAAGAGAGTATCTCCAGCCATCCGGGCGTTGCCGAAGTGGCGGTGGTTGGGGTGAAAGATGCGCTGAAAGGGCAGGTGGCGGTGGCGTTTGTCATTCCGAAAGAGAGCGACAGTCTGGAAG  >  NZ_CP009273/349917‑350067

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑