Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273799,3250GT54.5% 1.5 / 13.2 11V123L (GTG→TTG) ybhJhydratase
Reads supporting (aligned to +/- strand):  ref base G (1/4);  new base T (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.

ACTCTGCGCCGTCGGCGGCACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAATGATCCTCGGGTCAGACAGCCA  >  NZ_CP009273/799243‑799410
                                                                                   |                                                                                     
actcTGCGCCGTCGGCGGCACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGGATTTTTTTGCcccc                                                                                >  2:117/1‑90 (MQ=255)
     gcgcCGTCGGCGGCACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGCGGGTTTTTTTTTGCccccccta                                                                            >  2:636363/1‑86 (MQ=255)
                     tATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCa                                                           <  2:803180/90‑1 (MQ=255)
                              tgatgaCCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGGGTTTTTTTGGCTCCCCCTATTTCGGGCCTCCCTCAATAAATGCg                                                  >  1:41812/1‑90 (MQ=255)
                              tgatgaCCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGGGTTTTTTTGGCCCCCCCTATTTCGGGCGTCCCCCCatatattgg                                                  >  1:419425/1‑87 (MQ=255)
                              tgatgaCCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGGATTTTTTTGCCCCCCCATTTTTCCGTCATTCCTCAAAATATTCg                                                  >  2:693766/1‑90 (MQ=255)
                                                  tATCGGCGGCCCAGCGTTATGGC‑GGTATTTTTTTGCCTCCGCATATTTCGGTCATCCCTCAATATATGCGTGGGATGATGGGAggcgggg                              >  2:241413/1‑88 (MQ=255)
                                                         ggcCCAGCGTTATGGC‑GGTATTTTTGTGCCTCCGCATATTTCGGGCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGGaaaaa                       >  2:309190/1‑89 (MQ=255)
                                                                       gC‑GGTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAATGATCCTCGGGTCAg         <  1:117/90‑1 (MQ=255)
                                                                          ggTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAATGATCCTCGGGTCAGAc       <  1:241413/90‑1 (MQ=255)
                                                                               ttttGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAATGATCCTCGGGTCAGACAGCca  <  2:311542/90‑1 (MQ=255)
                                                                                   |                                                                                     
ACTCTGCGCCGTCGGCGGCACTATTAACGGTGATGACCATGTTTTTGGTTTATCGGCGGCCCAGCGTTATGGC‑GGTATTTTTGTGCCTCCGCATATTGCGGTCATCCATCAATATATGCGTGAGATGATGGCAGGCGGCGGCAAAATGATCCTCGGGTCAGACAGCCA  >  NZ_CP009273/799243‑799410

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑