Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092733,199,7940CT48.0% 15.1 / 15.3 25intergenic (‑179/‑28)ttdR/ttdADNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha
Reads supporting (aligned to +/- strand):  ref base C (0/13);  new base T (12/0);  total (12/13)
Fisher's exact test for biased strand distribution p-value = 1.92e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

AAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGA  >  NZ_CP009273/3199658‑3199925
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aaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCa                                                                                                                                   <  2:65963/139‑1 (MQ=255)
      tGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGAGGATTTTTTTAGACaa                                                                                                                              >  1:493302/1‑138 (MQ=255)
        ccATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAt                                                                                                                            <  1:34767/138‑1 (MQ=255)
           ttCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGGATTTTTTCAAACAAAAACa                                                                                                                         >  2:34767/1‑138 (MQ=255)
                       gcgcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAg                                                                                                               <  2:577409/136‑1 (MQ=255)
                          cAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAACTGGAGTTggcc                                                                                                         >  1:609684/1‑136 (MQ=255)
                          cAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATTGAggttgca                                                                                                         >  2:324591/1‑133 (MQ=255)
                             tatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatga                                                                                                      <  1:416622/139‑1 (MQ=255)
                                     cTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGa                                                                                               <  1:324591/138‑1 (MQ=255)
                                       tATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAAAAAAACAAAAAATGGAGTTGCCATGATGAGCgg                                                                                               >  1:360893/1‑135 (MQ=255)
                                         ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGta                                                                                          <  1:169966/139‑1 (MQ=255)
                                            tCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGtaat                                                                                        <  1:112650/138‑1 (MQ=255)
                                                   gATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAAc                                                                                 <  1:320625/138‑1 (MQ=255)
                                                     ttCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg                                                                              <  2:133584/139‑1 (MQ=255)
                                                        aCGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa                                                                            <  1:80266/138‑1 (MQ=255)
                                                            aCTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAAATTTTTCAAACAAAAACAAAAAATTGGGGTGGCAGGATGGGCGAAAGTAAAAAAAAAAAAGCAGTGa                                                                        >  2:301380/1‑138 (MQ=255)
                                                                ttacttacATATTCACGGTGGCAAAAAAAATAAAACCACATTTTTAGTGGTAGTTTGTGGCTGTGAATTTTTTCAAAAAAAAACAAAAACACGGATTTCTCTGAAGAGCGGAAGAAATAATAAAAAAGCAGAGAATAAg                                                                   >  1:308218/1‑139 (MQ=255)
                                                                          atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAACAAAAGGCAGTGAATAAGTTGACa                                                             >  1:89310/1‑135 (MQ=255)
                                                                          atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAAAACAAAAAATGGAGTTTGCATTGTGAGGGAAAGTAATAAAAAAAAAGCAGTGAATAAATTGACa                                                             >  2:543611/1‑135 (MQ=255)
                                                                                            tataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAATACAAAAAATGGGGTTGCCATGATGAGCGAAAGTAATAAGCAACAAGCAGTGAATAAGATGAAAGAGAATGTCGCTAACTTTAACg                                       >  1:497092/1‑139 (MQ=255)
                                                                                                           ttAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAAACAAAAAATGGAGTTGGCCTGGTGGGGGGAAGTAATAAACAACAGGCAGTGAATAAGGTGACAGAGGTTGTCGCTAAATTTTCCGCCATGATTTCTAccc                        >  2:182356/1‑139 (MQ=255)
                                                                                                              gTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAAACAAAAGCGGGAGTGGCCATGATGAGCGAAATTAATAAGCACCAGTCAGTAAATACGCTGACAGGTATTGTCCCTATCTTTTCCGCCATGATTTCTACCCGa                      <  2:308218/138‑1 (MQ=255)
                                                                                                                 gTAGTTTGTGGCGGTGAATTTTTTCAGACAAAAAAAAAAAATAGAGGTGGCCTGATGGGCGGAAGTAATAAAAAAAAGGCAGATAATAAATTGACAGGGATTGTCGCTAAATTTACCGCCCTGATTTTTACCCGAATGc                  >  1:283500/1‑139 (MQ=255)
                                                                                                                        gtgGCGGTAAATTTTTCCAGACAAATACAAAAACGGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgatg            <  2:89310/138‑1 (MQ=255)
                                                                                                                                 aaTTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa  <  2:360893/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                   
AAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGA  >  NZ_CP009273/3199658‑3199925

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑