Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,213,5210TG58.3% 7.1 / 11.6 12K12N (AAA→AAC) iclRglyoxylate bypass operon transcriptional repressor IclR
Reads supporting (aligned to +/- strand):  ref base T (0/5);  new base G (7/0);  total (7/5)
Fisher's exact test for biased strand distribution p-value = 1.26e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.93e-03
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCTTTTTTCTGTATCGTGGAAATCATTTTCATTTTT  >  NZ_CP009273/4213453‑4213599
                                                                    |                                                                              
tCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGa                                                           <  2:111352/90‑1 (MQ=255)
      aaTTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTTTTCCGCGTTTTGCGGGGATgggg                                                     >  1:125635/1‑89 (MQ=255)
           cAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTCTGCCCCGGTTCGCGGGGATGGGTGCggc                                                >  2:509414/1‑88 (MQ=255)
            aGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGAcc                                               <  2:51990/90‑1 (MQ=255)
                    cgTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGTCCATGACAGt                                       <  2:283800/90‑1 (MQ=255)
                            aCTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTTTGCCGCGGTTTGCGGGGATGGGGGGGGCCCTGACAGTCTCttttt                               >  2:447961/1‑90 (MQ=255)
                              tGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCTTTTTTc                             <  1:367292/90‑1 (MQ=255)
                              tGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTTTTCCGCGGTTTGCGGGGATGGGGGGGGCCATGACAGGCTCttttttt                             >  1:470947/1‑89 (MQ=255)
                              tGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTTTTTGCCGCGTTTTGCGGGGATGGGGGGGGCCATGACAGTCTCttttttt                             >  2:113006/1‑89 (MQ=255)
                                          gTCGCTGGTGCGGTGGCAACGGCGGGGTTTTTTCCGCGTTTTGCGGGAATGGGGGGGACCATGACAGTCTCTTTTTTTTGTATCGTggga                 >  2:236304/1‑88 (MQ=255)
                                                      gTGGCAACGGCGGGGTTTTTGCCGCGTTTTGCGGGGGTGGGGGGGGCCATGACAGTCTCTTTTTTTTTTTTTGTGGGAAtcatttttttt     >  1:356178/1‑86 (MQ=255)
                                                         gCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCTTTTTTCTGTATCGTGGAAATCATTTTCAttttt  <  2:71376/90‑1 (MQ=255)
                                                                    |                                                                              
TCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCTTTTTTCTGTATCGTGGAAATCATTTTCATTTTT  >  NZ_CP009273/4213453‑4213599

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑