Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,175,9570AT53.8% 3.9 / 13.6 13I17F (ATT→TTT) zupTzinc transporter ZupT
Reads supporting (aligned to +/- strand):  ref base A (0/6);  new base T (7/0);  total (7/6)
Fisher's exact test for biased strand distribution p-value = 5.83e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.56e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GAAGATTTATAAGGAGTTGTCGATGTCAGTACCTCTCATTCTGACCATACTGGCGGGGGCAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGTTTTCGCTAGGTTTTGCGGCGGGGA  >  NZ_CP009273/3175887‑3176035
                                                                      |                                                                              
gAAGATTTATAAGGAGTTGTCGATGTCAGTACCTCTCATTCTGACCATACTGGCGGGGGGGGCCACGTTTTTTTGCGCGTTTTTTGGCgg                                                             >  2:184506/1‑89 (MQ=255)
gAAGATTTATAAGGAGTTGTCGATGTCAGTACCTCTCATTCTGACCATACTGGCGGGGGGAGCCCCGGTTTTTTGGGCGGTTTTCcgcgg                                                             >  1:299476/1‑89 (MQ=255)
             gAGTTGTCGATGTCAGTACCTCTCATTCTGACCATACTGGCGGGGGGAGCCACGTTTTTTTGGGCGTTTTTCGGCGTTCTCTGGCaaaaa                                                >  2:369631/1‑90 (MQ=255)
                        gTCAGTACCTCTCATTCTGACCATACTGGCGGGGGCAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCg                                     <  2:138466/90‑1 (MQ=255)
                                 tctcATTCTGACCATACTGGCGGGGGCAGCCCCGTTTTTTTGGGCGTTTTTCGGCGTTCTCGGGCAAAAACCCCCCAACCCCTTACTGGc                            >  1:342078/1‑90 (MQ=255)
                                 tctcATTCTGACCATACTGGCGGGGGCAGCCCCGTTTTTTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGc                            >  1:160947/1‑90 (MQ=255)
                                    cATTCTGACCATACTGGCGGGGGCAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGtt                         <  1:204992/90‑1 (MQ=255)
                                           aCCATACTGGCGGGGGCAGCCCCGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGTTTTCGCTa                  <  1:17801/90‑1 (MQ=255)
                                               tACTGGCGGGGGCAGCCACGTTTTTTGGCGCGTTTTTCGGCGTTCTCGGGCAAAAAACCTCGAACCGCTTACTGGCGGTTTCGCTAGGtt              >  1:27072/1‑90 (MQ=255)
                                                   ggCGGGGGCAGCCACGTTTTTTTGCGCGTTTCTCGGCGTTCTCCGGCAAAAAACCCCGAACCCCTTACTGGCGGTTTTGCTAGGTTTTgc          >  2:80922/1‑90 (MQ=255)
                                                     caggggCAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGTTTTCGCTAGGTTTTgcgg        <  1:116527/88‑1 (MQ=255)
                                                          gCAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGTTTTCGCTAGGTTTTGCGGCgggg   <  1:81320/90‑1 (MQ=255)
                                                           cAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGTTTTCGCTAGGTTTTGCGGCGGGGa  <  1:4399/90‑1 (MQ=255)
                                                                      |                                                                              
GAAGATTTATAAGGAGTTGTCGATGTCAGTACCTCTCATTCTGACCATACTGGCGGGGGCAGCCACGTTTATTGGCGCGTTTCTCGGCGTTCTCGGGCAAAAACCCTCGAACCGCTTACTGGCGTTTTCGCTAGGTTTTGCGGCGGGGA  >  NZ_CP009273/3175887‑3176035

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑