Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,085,1530GT54.5% 6.5 / 16.1 11V221F (GTT→TTT) rsmE16S rRNA (uracil(1498)‑N(3))‑methyltransferase
Reads supporting (aligned to +/- strand):  ref base G (4/1);  new base T (0/6);  total (4/7)
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.

CTGATTGGCCCGGAAGGCGGTTTATCGGCAGATGAAATTGCCATGACTGCCCGCTATCAATTTACTGATATCCTGTTGGGACCTCGCGTTTTGCGTACAGAGACAACTGCGCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACGGAGAA  >  NZ_CP009273/3085066‑3085231
                                                                                       |                                                                              
ctgATTGGCCCGGAAGGCGGTTTATCGGCAGATGAAATTGCCATGACTGCCCGCTATCAATTTACTGATATCCTGTTGGGACCTCGCGtt                                                                              <  2:322137/90‑1 (MQ=255)
                             aGATGAAATTGCCATGACTGCCCGCTATCAATTTACTGATATCCTGTTGGGACCTCGCGTTTTGCGTACAGAGACAACTGCGCTCACCGc                                                 >  1:224145/1‑90 (MQ=255)
                              gATGAAATTGCCATGACTGCCCGCTATCAATTTACTGATATCCTGTTGGGACCTCGCGTTTTGCGTACAGAGACAACTGCGCTCACCGcc                                                >  2:61019/1‑90 (MQ=255)
                                       gCCATGACTCCCCGCTATCAATTTACTGATACCCTGTGGGGCCCTCGCTTTTTGCGTACAGAGACACCTGCGCTCACCGCCATTACcgcg                                       <  1:50205/90‑1 (MQ=255)
                                                                 tGATATCCTGTTGGGACCTCGCGTTTTGCGTACAGAGACAACTGCGCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTggg             >  1:63609/1‑90 (MQ=255)
                                                                        cTGTTGGGCCCCCGTTTTTTGCGCAAAGAGCCACCTGCGCCCCCCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACgg      <  1:369524/90‑1 (MQ=255)
                                                                        cTGTGGGGCCCTCGCTTTTTGCGAACAGAGACAACTGCCCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACgg      <  2:472739/90‑1 (MQ=255)
                                                                          gtggggCCCTCGCTTTTTGCGTACAGAGCCAGCCGCGCCCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACGgag    <  2:248629/87‑1 (MQ=255)
                                                                           ttGGGCCCTCGCTTTTGGCGTAAAGAGACAACTGCGCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACGgaga   <  1:47949/90‑1 (MQ=255)
                                                                           tggggCCCTCGCTTTTTGCGTACAGAGACAACTGCGCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACGgaga   <  2:200897/88‑1 (MQ=255)
                                                                            tGGGACCTCGCGTTTTGCGTACAGAGACAACTGCGCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACGGagaa  >  1:488480/1‑90 (MQ=255)
                                                                                       |                                                                              
CTGATTGGCCCGGAAGGCGGTTTATCGGCAGATGAAATTGCCATGACTGCCCGCTATCAATTTACTGATATCCTGTTGGGACCTCGCGTTTTGCGTACAGAGACAACTGCGCTCACCGCCATTACCGCGCTACAAGTACGATTTGGCGATTTGGGCTAACGGAGAA  >  NZ_CP009273/3085066‑3085231

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: