Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP009273966,0250AG60.0% 6.6 / 38.6 30Q394R (CAA→CGA) ycaQwinged helix DNA‑binding protein YcaQ
Reads supporting (aligned to +/- strand):  ref base A (8/4);  new base G (10/8);  total (18/12)
Fisher's exact test for biased strand distribution p-value = 7.09e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.91e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

ATCTCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTG  >  NZ_CP009273/965901‑966156
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aTCTCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACt                                                                                                                        >  2:435400/1‑138 (MQ=255)
 tctctcTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGa                                                                                                                      >  2:243099/1‑139 (MQ=255)
       tgtgGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCg                                                                                                                >  1:167392/1‑139 (MQ=255)
               cAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCt                                                                                                        >  1:378165/1‑139 (MQ=255)
                 ggAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTgg                                                                                                      >  2:104884/1‑139 (MQ=255)
                        aTTAAACCAACGACAACGCTGCAAAGAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGaaa                                                                                                  >  2:534038/1‑136 (MQ=255)
                                       aCGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATaaa                                                                                <  1:104884/139‑1 (MQ=255)
                                        cGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAAt                                                                               >  2:374851/1‑139 (MQ=255)
                                        cGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAAt                                                                               >  1:138280/1‑139 (MQ=255)
                                             cAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGAtt                                                                           <  1:274127/138‑1 (MQ=255)
                                             cAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGAt                                                                            <  2:167392/137‑1 (MQ=255)
                                                aaaGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGa                                                                       <  1:402299/139‑1 (MQ=255)
                                                 aaGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGATATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGAt                                                                      <  2:175955/139‑1 (MQ=255)
                                                       tACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGAtt                                                                >  2:199646/1‑139 (MQ=255)
                                                       tACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCAT‑AATGAATTTTATAAAAttt                                                               >  1:240004/1‑139 (MQ=255)
                                                              ggCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCAt                                                         >  1:43350/1‑139 (MQ=255)
                                                                   ttACTGATTTCGCTGACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCAt                                                     >  1:69243/1‑138 (MQ=255)
                                                                   ttACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCAt                                                     >  2:553530/1‑138 (MQ=255)
                                                                          tttCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGAt                                             <  2:378165/139‑1 (MQ=255)
                                                                          tttCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGAt                                             <  1:173082/139‑1 (MQ=255)
                                                                               cTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGAccc                                                                                           >  1:354642/1‑88 (MQ=255)
                                                                               cTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGAccc                                                                                           <  2:354642/88‑1 (MQ=255)
                                                                                   cTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTgga                                    <  1:81769/139‑1 (MQ=255)
                                                                                   cTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTg                                      >  2:81769/1‑137 (MQ=255)
                                                                                        agcagGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAAc                               <  1:435400/139‑1 (MQ=255)
                                                                                        agcagGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAAc                               >  1:178665/1‑139 (MQ=255)
                                                                                           agGCAACGCGGGTGACATTAGGATGCTGCCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTAt                            <  1:243099/139‑1 (MQ=255)
                                                                                                                    ctgcCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTggg                                                                                                     >  1:321528/1‑41 (MQ=255)
                                                                                                                    ctgcCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTggg                                                                                                     <  2:321528/41‑1 (MQ=255)
                                                                                                                     tgcCCGCGAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATtg  >  1:357398/1‑139 (MQ=255)
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ATCTCTCTGTGGTTACAGGAAGGTATTAAACCAACGACAACGCTGCAAAAAGGGCTACGTCAGGCGATTACTGATTTCGCTAACTGGCAGCAGGCAACGCGGGTGACATTAGGATGCTGCCCGCAAGGCCTCTTTACTGATTGCCGCACCGGCTGGGAAATAGACCCCGTCGCATAAATGATTATGATAAGATTTATGCATTCATAACCCGATCCATCTGGAGGAACTATGGATCATCGTCTGCTTGAAATCATTG  >  NZ_CP009273/965901‑966156

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑