Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,186,0090TG54.5% 6.5 / 10.6 11T7P (ACC→CCC) thiCphosphomethylpyrimidine synthase ThiC
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 = 4.28e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GATATAAATGCGTTTTGAGTTGGGAAAGGCGGTGCCTTCCAGGGTGTCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGTCAGTTTTGTTGCAGACATAGCTCATTCCAAAAAGTTAAGGACGTGGCTTGTCAGACGACGGATGAAGCAAGAGACGATC  >  NZ_CP009273/4185923‑4186088
                                                                                      |                                                                               
gATATAAATGCGTTTTGAGTTGGGAAAGGCGGTGCCTTCCAGGGTGTCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGGCAg                                                                              >  1:98237/1‑90 (MQ=255)
  tataAATGCGTTTTGAGTTGGGAAAGGCGGTGCCTTCCAGGGTGTCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGGCAggt                                                                            >  1:417476/1‑88 (MQ=255)
         gCGTTTTGAGTTGGGAAAGGCGGTGCCTTCCAGGGTGTCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGTCAGTTTTGTTGc                                                                     <  1:389042/90‑1 (MQ=255)
           gTTTTGAGTTGGGAAAGGCGGTGCCTTCCAGGGTGTCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGGCCGTTTTTTTGGAg                                                                   >  2:43921/1‑90 (MQ=255)
                                           gtgtCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGTc                                                                                >  1:202347/1‑45 (MQ=255)
                                           gtgtCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGTc                                                                                <  2:202347/45‑1 (MQ=255)
                                             gtCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGGCAGTTTTTTTTCAGACATAGCTCATTTCAAAAAAATAAAGACGTgggt                                 >  1:421617/1‑88 (MQ=255)
                                              tCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGGCAGTTTTTTTTCAGACATAGCTCATTCCCAAAAGGTAAGGACGGGGGtt                                >  1:411785/1‑90 (MQ=255)
                                                            ggCCCGGGCGCGTTGTTCGCGGCGGGTCAGTTTTGTTGCAGACATAGCTCATTCCAAAAAGTTAAGGACGTGGCTTGTCAGACGACGGAt                  <  1:271805/90‑1 (MQ=255)
                                                                          gttCGCGGCGGGGCAGTTTTTTTTCAGACATAGCTCATTTCAAAAAAATAAGGGCGGGGGTTGTTTGACGACGGGTGGAGCAAAAGAGGa    >  2:11572/1‑90 (MQ=255)
                                                                            tCGCGGCGGGTCAGTTTTGTTGCAGACATAGCTCATTCCAAAAAGTTAAGGACGTGGCTTGTCAGACGACGGATGAAGCAAGAGACGATc  <  1:260136/90‑1 (MQ=255)
                                                                                      |                                                                               
GATATAAATGCGTTTTGAGTTGGGAAAGGCGGTGCCTTCCAGGGTGTCGATAAAATGTTGGGCCCGGGCGCGTTGTTCGCGGCGGGTCAGTTTTGTTGCAGACATAGCTCATTCCAAAAAGTTAAGGACGTGGCTTGTCAGACGACGGATGAAGCAAGAGACGATC  >  NZ_CP009273/4185923‑4186088

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: