Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,377,9790GA54.5% ‑1.4 / 10.2 11F80F (TTC→TTT) ycjWLacI family DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (5/0);  new base A (0/6);  total (5/6)
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.

TCTGCCGGATTGTGCGACGTTTGTAATATCACGTCGAAACCTTCTTCTTCAGCTTTGGCGGTGATGGCATGCAAAACTTCAGAGAAAAACGGATTACCCGCCGTAGTTTTGGTCGAACGGGTAGAAATCACCATAATGGCATCAAAACCCGAAGAGGTCAG  >  NZ_CP009273/1377896‑1378056
                                                                                   |                                                                             
tctGCCGGATTGTGCGACGTTTGTAATATCACGTCGAAACCTTCTTCTTCAGCTTTGGCGGTGATGGCATGCAAAACTTCAGAGAAAAAc                                                                         >  1:184737/1‑90 (MQ=255)
tctGCCGGATTGTGCGACGTTTGTAATATCACGTCGAAACCTTCTTCTTCAGCTTTGGCGGGGATGGCATGCAAAACTTCAGAGAAAAAc                                                                         >  1:518692/1‑90 (MQ=255)
       gagtgtgCGACGTTTGTAATATCACGTCGAAACCTTCTTCTTCAGCTTTGGCGGGGAAGGCATGCAAAACTTCATAGAAAAACGGATTAc                                                                  >  1:336605/4‑90 (MQ=255)
                           atCACGTCGAACCCTTCTTCTTCAGCTTTGGCGGTGATGGCATGAAAAACTTCAGAAAAAAACGGATTCCCCGCCGTAGTTTTGGTCGaa                                              <  2:259788/90‑1 (MQ=255)
                              aCGTCGAAACCTTCTTCTTCAGCTTTGGCGGTGATGGCATGCAAAACTTCAGAGAAAAACGGATTACCCGCCGTAGTTTTGGTCGAACgg                                           >  2:87341/1‑90 (MQ=255)
                                       ctttcttcttcATTTTGGGGGGTGATGGCAGGAAAAACTTCAAAAAAAAACGGATTCCCCGCCGTAGTTTTGGTCGAACGGGTAGAAATc                                  <  1:472303/88‑1 (MQ=255)
                                       ccTTCTTCTTCAGCTTTGGGGGTGATGGCATGAAAAACTTCAGAAAAAAACGGATTCCCCGCCGTAGTTTTGGTCGAACGGGTAGAAATc                                  <  2:184737/90‑1 (MQ=255)
                                                         ggggTGATGGCAAGAAAAACTCAAAAAAAAAACGGATTCCCCGCCGTAGTTTTGGTCGAACGGGTAGAAATCACCATAATGGCATCaaaa                <  1:482847/88‑1 (MQ=255)
                                                                tGGCATCAAAAACTTAAGAAAAAAACGGATTCCCCGCCGTAGTTTTGGTCGAACGGGTAGAAATCACCATAATGGCATCAAAACCCGAag         <  1:560040/90‑1 (MQ=255)
                                                                              tCAGAGAAAAACGGATTACCCGCCGTAGTTTTGGTCGAACGGGTAGAAATCACCATAATGGCATCAAAACCCGAAGAGGTCAg  >  1:586036/1‑83 (MQ=255)
                                                                              tCAGAAAAAAACGGATTACCCGCCGTAGTTTTGGTCGAACGGGTAGAAATCACCATAATGGCATCAAAACCCGAAGAGGTCAg  <  2:586036/83‑1 (MQ=255)
                                                                                   |                                                                             
TCTGCCGGATTGTGCGACGTTTGTAATATCACGTCGAAACCTTCTTCTTCAGCTTTGGCGGTGATGGCATGCAAAACTTCAGAGAAAAACGGATTACCCGCCGTAGTTTTGGTCGAACGGGTAGAAATCACCATAATGGCATCAAAACCCGAAGAGGTCAG  >  NZ_CP009273/1377896‑1378056

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑