Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,729,1900TC54.5% 6.2 / 11.3 11D284D (GAT→GAC) xylRDNA‑binding transcriptional regulator XylR
Reads supporting (aligned to +/- strand):  ref base T (5/0);  new base C (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.

AAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCG  >  NZ_CP009273/3729104‑3729268
                                                                                      |                                                                              
aaaGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTGGCTGACCGATccc                                                                             >  2:635985/1‑90 (MQ=255)
      gaaATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGtt                                                                       >  2:322938/1‑90 (MQ=255)
        aaTGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTAt                                                                     >  1:439639/1‑90 (MQ=255)
               cTACAGCAATTTTTGCCCCCCCCAGTTCGCGTCATTGACCGGCGCTCAAAAGATTACCGCTCGCTGCCCGACCCCGCCGTTATTCAGGcc                                                              <  1:322938/90‑1 (MQ=255)
                tACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCa                                                             >  1:503929/1‑90 (MQ=255)
                                  ccccaTTTCGCTTCATTGACCGGCGAAAAAAAGTTTTTCCCCCCCTGACCGACCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATc                                           <  1:449192/88‑1 (MQ=255)
                                                       ggCGCAAAACAGATTATCGCCCGCGCCCCGACCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAg                      <  1:154338/90‑1 (MQ=255)
                                                       ggCGCAAAAAAGTTTACCCCTCCCTGCCCGACCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAg                      <  1:102413/90‑1 (MQ=255)
                                                             aaaCAGTTTCCCGCTCGCGGCCCGCCCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATCAAAGTGGATc                <  1:635985/89‑1 (MQ=255)
                                                                         gctcgctGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATg    >  1:679866/1‑90 (MQ=255)
                                                                           tccctGCCCGACCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCg  <  1:292763/87‑1 (MQ=255)
                                                                                      |                                                                              
AAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCG  >  NZ_CP009273/3729104‑3729268

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑