Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,199,8030TA58.3% 1.5 / 13.1 12intergenic (‑188/‑19)ttdR/ttdADNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha
Reads supporting (aligned to +/- strand):  ref base T (1/4);  new base A (7/0);  total (8/4)
Fisher's exact test for biased strand distribution p-value = 1.01e-02
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.

ACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTA  >  NZ_CP009273/3199728‑3199885
                                                                           |                                                                                  
aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGt                                                                      <  2:17778/90‑1 (MQ=255)
   tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGGTgg                                                                   >  1:64397/1‑89 (MQ=255)
   tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAAAAAAAAAAAAAAATTGAGGTGc                                                                   >  1:256436/1‑90 (MQ=255)
     ttCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGAATTTTTCAAAAAAAAAAAAAAAATAGAGTTGGCa                                                                 >  1:324742/1‑90 (MQ=255)
           gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAAAACAAAAAATGGAGTTGCCctgattg                                                           >  1:429588/1‑88 (MQ=255)
             ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGc                                                         <  1:93503/90‑1 (MQ=255)
                aaaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGaa                                                      <  2:489866/90‑1 (MQ=255)
                                        gTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAAt                              <  2:324742/90‑1 (MQ=255)
                                             aGTTTGTGGCGGTGAATTTTTTCAGACAAAAACAAAAAATGGAGTTGCCCTGATGAGGGAAAGGAATAAGCAACAGGGAGTGAATAAGtt                         >  1:85425/1‑90 (MQ=255)
                                                  gtgGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGGGGTGGCATGGTGGGGGAAAATAAAAAAAAAAAGGCAGGGAAAAAATTTACag                    >  2:625010/1‑90 (MQ=255)
                                                  gtgGCGGTGAATTTTTTCAGACAAAAAAAAAAAATGGAGTTGCCCTGATGAGGGGAAGAAATAAGCAACAAGCCGGGGAAAAATTGACag                    >  1:443135/1‑90 (MQ=255)
                                                                    aGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTa  >  1:617090/1‑90 (MQ=255)
                                                                           |                                                                                  
ACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTA  >  NZ_CP009273/3199728‑3199885

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑