Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273262,0510TG54.5% 7.5 / 10.8 11T72P (ACC→CCC) BW25113_RS25425hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/5);  new base G (6/0);  total (6/5)
Fisher's exact test for biased strand distribution p-value = 2.16e-03
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.

ATCAGTGGCTGGACGGTTTTTTCCTGCATATCCACGAGGTAGTAGTAACTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGTACGTAAAACCTGCAAGGTGGGACCGGATAAGTAGTCAACCTGTGACCATTCTTCGCTGACATCATCCTGGTGGCTGACC  >  NZ_CP009273/261969‑262130
                                                                                  |                                                                               
atcaGTGGCTGGACGGTTTTTTCCTGCATATCCACGAGGTAGTAGTAACTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGTACGTaaa                                                                          <  2:260814/90‑1 (MQ=255)
               gTTTTTTCCTGCATATCCACGAGGTAGTAGTAACTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGTACGTAAAACCTGCAAGGTGGGa                                                           <  2:59624/90‑1 (MQ=255)
                 tttttCCTGCGTATCCACGAGGTAGTAGTAACTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGTACGTAAAACCTGCAAGGTGGGAcc                                                         <  1:9239/90‑1 (MQ=255)
                                       tagtagtaACTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGGACGTAAAAACCGCAAGGGGGGGGCGGGGAAATAGTCAACCCGTGAc                                   >  2:288294/1‑90 (MQ=21)
                                              aaCTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGGACGTAAAAACTGCAAGGGGGGGCCGGGTAAGTAGGCAACCTGTGACCAttctt                            >  2:50/1‑90 (MQ=21)
                                                cTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGGACGTAAAAACCGCAAGGGGGGGCCGGGTAAAAAGGCAACCCGTGGCCAttctttc                          >  2:311628/1‑88 (MQ=16)
                                                  gCCATCCTCGCAGCCATCGGGCGACTGGCGGGTACGTAAAACCTGCAAGGTGGGACCGGATAAGTAGTCAACCTGTGACCATTCTTCGCt                        <  1:288294/90‑1 (MQ=255)
                                                  gCCATCCTCGCAGCCATCGGGCGACTGGCGGGGACGGAAAAAATGCCAAGGGGGGCCGGGTAAAGAATCAACCTGGGAGCCgtcttcccc                        >  1:145303/1‑87 (MQ=255)
                                                   ccATCCTCGCAGCCATCGGGCGACTGGCGGGGACGTAAAAACTGCAAGGGGGGGCCGGGTAAAAAGTCAAACCGTGACCATTCTTCCCTg                       >  2:294893/1‑90 (MQ=21)
                                                                  tCGGGCGACTGGCGGGGACGTAAAACCTGCAAAGGGGGACCGGATAAAAAGTCAAACCGTGACCCCTTTTCCCTGACACCATCCtggtgg        >  2:295018/1‑90 (MQ=255)
                                                                        gACTGGCGGGTACGTAAAACCTGCAAGGTGGGACCGGATAAGTAGTCAACCTGTGACCATTCTTCGCTGACATCATCCTGGTGGCTGAcc  <  2:50034/90‑1 (MQ=255)
                                                                                  |                                                                               
ATCAGTGGCTGGACGGTTTTTTCCTGCATATCCACGAGGTAGTAGTAACTGCCATCCTCGCAGCCATCGGGCGACTGGCGGGTACGTAAAACCTGCAAGGTGGGACCGGATAAGTAGTCAACCTGTGACCATTCTTCGCTGACATCATCCTGGTGGCTGACC  >  NZ_CP009273/261969‑262130

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: ‑