Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913599,5790TG54.5% 11.1 / 13.0 11V289G (GTG→GGG) cusAcopper/silver export system RND permease
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: Frequency below/above cutoff threshold.

ATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGCGATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCC  >  NC_000913/599536‑599622
                                           |                                           
aTTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGGGGGGGGGGGATcc                                        >  1:1939209/1‑49 (MQ=38)
aTTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGATcc                                        >  1:2718705/1‑49 (MQ=39)
     cGAACTAAGCGGCGAAGGCGAAGTGGCGGGCGGGGGGGGGATCCTGCGa                                   >  1:567349/1‑49 (MQ=38)
            aaCGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGCGATCCGGc                             <  1:539730/48‑1 (MQ=255)
               ggcgaaggcgaaGTGGCGGGGGGGGGGGGGATCCTGCGATCCGGCaaa                          >  1:632147/1‑48 (MQ=38)
                gcgaaggcgaagTGGCGGGCGGGGGGGGGATCCTGCGATCCGGCaaaa                         >  1:2668904/1‑48 (MQ=255)
                 cgaaggcgaagTGGCGGGCGGGGTGGTGATCCTGCGATCCGGCAAAAAc                       <  1:551061/49‑1 (MQ=255)
                 cgaaggcgaagTGGCGGGCGGGGGGGTGATCCTGCGATCCGGCAAAAAc                       >  1:1721441/1‑49 (MQ=255)
                    aggcgaagTGGCGGGCGGGGTGGTGATCCTGCGATCCGGCAAAAACGcc                    <  1:360831/49‑1 (MQ=255)
                        gaagTGGCGGGCGGGGGGGGGGTCCTGCGGTCCGGCAAAAAAACCCgg                 >  1:2051578/1‑47 (MQ=19)
                                    ggggTGGTGATCCTGCGATCCGGCAAAAACGCCCGAGAAGTGATcgccg    <  1:1264945/49‑1 (MQ=255)
                                      ggtggtGATCCTGCGATCCGGCAAAAACGCCCGAGAAGTGATCgccgcc  <  1:1085710/49‑1 (MQ=255)
                                      ggtggtGATCCTGCGATCCGGCAAAAACGCCCGAGAAGTGATCgccgcc  <  1:2797311/49‑1 (MQ=255)
                                           |                                           
ATTGCCGAACTAAACGGCGAAGGCGAAGTGGCGGGCGGGGTGGTGATCCTGCGATCCGGCAAAAACGCCCGAGAAGTGATCGCCGCC  >  NC_000913/599536‑599622

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑