Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,619,9330TG54.5% 9.9 / 11.3 11P77P (CCA→CCC) yhhJABC transporter permease
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.

CGCGAAGGTATAGCGTCCGGCGTCCAGTCCGGCATCCATCTCATCGGCGGTGATCATCTCCGGTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGATAACTGCGATTGATCCATATCGGCAATGGCGATCGGCGCGAGG  >  NZ_CP009273/3619870‑3620020
                                                               |                                                                                       
cgcgAAGGTATAGCGTCCGGCGTCCAGTCCGGCATCCATCTCATCGGCGGGGATCATCTCCCGGGGGAAAAAACACGGAACATAGAAGCt                                                               >  2:11912/1‑90 (MQ=255)
              gTCCGGCGTCCAGTCCGGCATCCATCTCATCGGCGGGGATCATCTCCCGGGGGAAAAAACACCGGCGAAAGAAACTGGTTACGAACCggg                                                 >  2:219651/1‑89 (MQ=255)
                ccGGCGTCCAGTCCGGCATCCATCTCATCGGCGGTGATCATCTCCGGGGGGAAAAAACACCGACGATAAAAGCTGTTAAAGATCCCGTTc                                               >  1:309087/1‑90 (MQ=255)
                 cGGCGTCCAGTCCGGCATCCATCTCATCGGCGGTGATCATCTCCGGGGGGAAAAAACACGGACGATAAAAGCTGTTTACGATCCGGGTCg                                              >  2:36672/1‑90 (MQ=255)
                 cGGCGTCCAGTCCGGCATCCATCTCATCGGCGGTGATCATCTCCCGGGGCAAAAAACACGGGCGATAGAAGCTGTTTACGATCCgggttg                                              >  1:139911/1‑86 (MQ=255)
                 cGGCGTCCAGTCCGGCATCCATCTCATCGGCGGGGATCATCTCCGGGGGCAAAAAACACGGGCGATAGAAGGTGTTAACGATCCCGGTCg                                              >  1:265649/1‑90 (MQ=255)
                  ggCGTCCAGTCCGGCATCCATCTCATCGGCGGTGATCATCTCCGGTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGa                                             <  1:36672/90‑1 (MQ=255)
                                     atcTCATCGGCGGTGATCATCTCCGGTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGATAACTGCGATTGATCCata                          <  2:15423/90‑1 (MQ=255)
                                                         ctcCGGTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGATAACTGCGATTGATCCATATCGGCAATGGCGATCGgcgc      <  2:309087/90‑1 (MQ=255)
                                                           ccGGTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGATAACTGCGATTGATCCATATCGGCAATGGCGATCGGCGCGa    <  1:219651/90‑1 (MQ=255)
                                                             ggTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGATAACTGCGATTGATCCATATCGGCAATGGCGATCGGCGCGAgg  >  2:173909/1‑90 (MQ=255)
                                                               |                                                                                       
CGCGAAGGTATAGCGTCCGGCGTCCAGTCCGGCATCCATCTCATCGGCGGTGATCATCTCCGGTGGCAAAAACCACGGACGATAGAAGCTGTTAACGATCCGGTTCGATAACTGCGATTGATCCATATCGGCAATGGCGATCGGCGCGAGG  >  NZ_CP009273/3619870‑3620020

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: ‑