Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273108,7850AC54.2% 20.0 / 21.7 24V101G (GTA→GGA) zapDcell division protein ZapD
Reads supporting (aligned to +/- strand):  ref base A (7/4);  new base C (0/13);  total (7/17)
Fisher's exact test for biased strand distribution p-value = 9.53e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.68e-06
Rejected as consensus: Frequency below/above cutoff threshold.

AGCCGCCTGGGATGCTCAGTCGCTGACGCACCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATCCAGGTCTGGAGTTT  >  NZ_CP009273/108696‑108870
                                                                                         |                                                                                     
aGCCGCCGGGGAGGCTCAGTCGCTGACGCCCCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATa                                                                                       <  1:253929/90‑1 (MQ=255)
     ccTGGGATGCTCAGTCGCTGACGCACCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTc                                                                                  >  2:90310/1‑90 (MQ=255)
          gATGCTCAGTCGCTGACGCACCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCccgc                                                                             <  2:166220/90‑1 (MQ=255)
                   tCGCTGACGCACCAGAGCAATCAAACGATCTTCCCGCAGAAATTGCCCGATACGCGGCGCGAAAATTAATCCGCCCCCCGCCGCTTTTaa                                                                    <  1:229202/90‑1 (MQ=255)
                       tGACGCACCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCccgc                                                                             <  2:145629/77‑1 (MQ=255)
                       tGACGCACCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCccgc                                                                             >  1:145629/1‑77 (MQ=255)
                       ggccGCCCCAGAGAAATCAAACGATCTCCCCGCAAAAATTGCCCGATCCGGGGCGGGAAAATTAATCCGCCCCCCGCCGCTTTTAActgc                                                                <  1:140631/87‑1 (MQ=255)
                                agagCAATCAAACGATCTTCACGCAGAAATTGCCCGATCCGCGGCGCGAAAATTAATCCGCCCCCCGCCGCTTTTAACTGCTGAATTAAt                                                       <  2:87105/90‑1 (MQ=255)
                                agagCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAAt                                                       >  2:361019/1‑90 (MQ=255)
                                agagCAATCAAACGATCTTCACGCAAAAATTCCCCGATACGCGGCGCGAAAATAAATCCGCCCCCCGCCGCTTTTAACTGCTGAATTGAt                                                       <  1:240225/90‑1 (MQ=255)
                                         gacagATCTTCACGCAGAAATTGCCCGATCCGGGGCGGGGAAATTAATCCGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATa                                              <  2:271806/86‑1 (MQ=255)
                                          aaCGATCTTCACGCAAAAATTGCCCGTTCCGCGGCGCGGAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATAc                                             <  2:230877/90‑1 (MQ=255)
                                             gATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGc                                          >  1:365044/1‑90 (MQ=255)
                                               cctccACGAAAAATTTCCCGGATAGGCGGGGCGAAATTTAATCCCCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGctc                                        <  1:363091/86‑1 (MQ=255)
                                                        aGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTctgtc                               >  1:271806/1‑86 (MQ=255)
                                                              tGCCCGATCCGCGGCGCGGAAATTAATCCGCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGc                         <  2:561570/90‑1 (MQ=255)
                                                                   gATCCGCGGCGCGAAAATTAATCCGCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGcc                    <  2:241845/90‑1 (MQ=255)
                                                                        ggggcgcgaAAATTAATCCCCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATcc               <  2:335613/88‑1 (MQ=255)
                                                                        gcggcgcgaAAATTAATCCCCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATcc               <  2:481548/90‑1 (MQ=255)
                                                                            cgcggAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATAc                                             <  2:304088/56‑1 (MQ=255)
                                                                            cgcggAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATAc                                             >  1:304088/1‑56 (MQ=255)
                                                                               gaaaaTTAATCCGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATCCAGGTCTg        <  2:75882/88‑1 (MQ=255)
                                                                               gaaaaTTAATCCGCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATCCAGGTCTg        <  1:188289/88‑1 (MQ=255)
                                                                               gaaaaTTAATCCGCCCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATCCAGGTCTg        <  2:138597/88‑1 (MQ=255)
                                                                                     tAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATCCAGGTCTGGAGttt  >  1:461646/1‑90 (MQ=255)
                                                                                         |                                                                                     
AGCCGCCTGGGATGCTCAGTCGCTGACGCACCAGAGCAATCAAACGATCTTCACGCAGAAATTGCCCGATACGCGGCGCGGAAATTAATACGCTCCCCGCCGCTTTTAACTGCTGAATTAATGCTTCAATACGGCTCTGGTCCACGCCAGGCACGCCAATCCAGGTCTGGAGTTT  >  NZ_CP009273/108696‑108870

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑