Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092734,594,1670CT52.2% 3.3 / 25.1 23S64F (TCT→TTT) bglJDNA‑binding transcriptional activator BglJ
Reads supporting (aligned to +/- strand):  ref base C (2/9);  new base T (12/0);  total (14/9)
Fisher's exact test for biased strand distribution p-value = 6.73e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.60e-04
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

CCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGT  >  NZ_CP009273/4594078‑4594243
                                                                                         |                                                                            
cccTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttctttttc                                                                              <  1:201975/90‑1 (MQ=255)
    tataAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGcc                                                                          <  1:149017/90‑1 (MQ=255)
          cTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCCTgaga                                                                    >  2:14752/1‑90 (MQ=255)
              aTACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTg                                                                <  2:94642/90‑1 (MQ=255)
                  cTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAgcg                                                            <  1:14752/90‑1 (MQ=255)
                   tataCCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAgcgc                                                           <  1:6879/90‑1 (MQ=255)
                         aGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTTTTCCCTGAGAAGGGAGCGCggagag                                                     >  2:320256/1‑90 (MQ=255)
                         aGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCCTTTTTTTTTTTTTTTCCCTGAGAAGGGAGCGCagagag                                                     >  2:91640/1‑90 (MQ=255)
                         aGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCCTGAGAAGGGAGGGCagaggg                                                     >  2:101107/1‑88 (MQ=255)
                         aGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTTCCATGAGAAGGGAGCGCagagag                                                     >  1:36113/1‑90 (MQ=255)
                          gTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCCTGAGAAATGGGCGCAGAGAgg                                                    >  2:37474/1‑90 (MQ=255)
                           tCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGGCATTTTTTTTTTTTTTTCCCTGAGAAGGGGGCGCAGAGgggg                                                   >  2:92042/1‑90 (MQ=255)
                              ggAGTCATTTCAGGATGCCATGTCGCGGATCTCGTATGCGGCGTTCTGCTTTTATTTTTTTACCATGAGAAGGGAGCGCAGAGGGGGGtt                                                >  1:207685/1‑90 (MQ=255)
                                   cATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGAGAAGGGAGGGCAGAGAGGGGTTATCtt                                           >  1:308586/1‑90 (MQ=255)
                                   cATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGGCATTTTTTTTTTTTTTTCCATGAGAAGTGAGGGCAGGGAGGGGTTAtttt                                           >  2:86271/1‑90 (MQ=255)
                                    aTTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttctttttc                                                                              <  2:41021/54‑1 (MQ=255)
                                    aTTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATtttttctttttc                                                                              >  1:41021/1‑54 (MQ=255)
                                    aTTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTTTGCCATGAGAAGTGAGCGCAGAGAGGGGTTATCTTg                                          >  1:22666/1‑90 (MQ=255)
                                        cAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGGTTATCTTGCctg                                      >  1:95251/1‑90 (MQ=255)
                                               ccATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTTTTTTTTTTCCCTTAGGAGGGAGCGCAGGGAGGGGTTTTCTTTCCTGACTTAAc                               >  2:250145/1‑90 (MQ=255)
                                                cATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACt                              <  2:94787/90‑1 (MQ=255)
                                                             tcGTTTGCGGCGGTCATTTTTTTTTTTTTTGCCATGGGGAGAGAGCGCAGAGAGGGGTTATTTTGCCTGACTGAAATGGGGGTTAAGatt                 >  1:199899/1‑90 (MQ=255)
                                                                       cggTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTAccc       <  1:101107/90‑1 (MQ=255)
                                                                        ggTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCg      <  1:91640/90‑1 (MQ=255)
                                                                            aTTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGt  <  1:86271/90‑1 (MQ=255)
                                                                            aTTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGt  <  1:295714/90‑1 (MQ=255)
                                                                                         |                                                                            
CCCTTATAAGCTCCATACCTATACCAGTCAGGAGTCATTTCAGGATGCCATGTCGCGGATCTCGTTTGCGGCGGTCATTTTTTCTTTTTCTGCCATGAGAAGTGAGCGCAGAGAGGGATTATCTTGCCTGACTGAACTGGCGATTAAGTTTCCGCGTACCCGGCGT  >  NZ_CP009273/4594078‑4594243

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑