Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,568,5120CA32.1% 60.9 / 12.6 28R3L (CGT→CTT) mdtMmultidrug efflux pump/bile salt:H(+) antiporter/Na(+):H(+) antiporter/K(+):H(+) antiporter
Reads supporting (aligned to +/- strand):  ref base C (1/18);  new base A (9/0);  total (10/18)
Fisher's exact test for biased strand distribution p-value = 1.45e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

AGACTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTA  >  NC_000913/4568374‑4568637
                                                                                                                                          |                                                                                                                             
aGACTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACg                                                                                                                              <  1:787602/140‑1 (MQ=255)
       cATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATa                                                                                                                       <  2:414510/140‑1 (MQ=255)
         tCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATaac                                                                                                                     <  2:436307/140‑1 (MQ=255)
                             cacaTTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGgag                                                                                                 >  1:188898/1‑140 (MQ=255)
                                  tAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAACAACTCCTTTTCCGGAGAAccc                                                                                            >  2:774999/1‑140 (MQ=255)
                                       aTCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACg                                                                                       <  1:234031/140‑1 (MQ=255)
                                         cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAACAAAAAAATCCTTGTCCGGAGAACCCCAACggg                                                                                     >  1:889124/1‑140 (MQ=255)
                                         cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTCCTTGTCCGGAGAACCCCAACggg                                                                                     >  2:101895/1‑140 (MQ=255)
                                         cccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACACCTTTTCCGGAGAACCCCAACggg                                                                                     >  2:220675/1‑140 (MQ=255)
                                          ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAGCGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGGATAAAAAAAAAACCCTTGTCCGGAGAACCCCCACgggg                                                                                    >  2:200446/1‑140 (MQ=255)
                                          ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAACGTGGCATAACAAACAACTCCTTTTCCGGAGAACCCCAACgggg                                                                                    >  1:793708/1‑140 (MQ=255)
                                          ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTTTCCGGAGAACCCCAACgggg                                                                                    >  2:12739/1‑140 (MQ=255)
                                          ccAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAACTCCTTTTCCGGAGAAACCCAACgggg                                                                                    >  2:492999/1‑140 (MQ=255)
                                            aGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGGATAACAAAAAAATCCTTTTCCGGAGAACCCCAACggggga                                                                                  >  1:142251/1‑138 (MQ=255)
                                                   aTCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAACAACCCCTTGTCCGGAGAACCCCAAAGGGGGAAACGaaa                                                                           >  1:91008/1‑140 (MQ=255)
                                                        aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAACAAAAAAATCCTTTTCCGGAGAACCCCAACGGGGGAAAAGAAAATCaa                                                                      >  2:367407/1‑140 (MQ=255)
                                                        aTCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAAATCCTTGTCCGGAGAACCCCAACGGGGGAAAAGAAAATCaa                                                                      >  2:161177/1‑140 (MQ=255)
                                                         tCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAAt                                                                     <  2:21826/140‑1 (MQ=255)
                                                         tCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAAt                                                                     <  1:220675/140‑1 (MQ=255)
                                                            gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATAcc                                                                  <  1:492999/140‑1 (MQ=255)
                                                            gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAAAAAAAAACTCCTTGTCCGGAGAAACCCCACGGGGGAAACGAAAATCAATAcc                                                                  >  2:743283/1‑140 (MQ=255)
                                                            gTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGGGGGATAAAAAACAAATCCTTGTCCGGAGAACCCCCACCGGGGAAAAAAAAATCaaaaac                                                                  >  2:761328/1‑136 (MQ=255)
                                                             tCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGaaaa                                                                                <  2:115864/125‑1 (MQ=255)
                                                             tCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGaaaa                                                                                >  1:115864/1‑125 (MQ=255)
                                                                    aTACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTaa                                                          <  1:319909/140‑1 (MQ=255)
                                                                            caAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAAAGGCATAAAAAACAACACCTTGTCCGGGGGAACCCAACGGGGGAAAAGAAAATCAAAACCGTCGGGAAAGACGaaa                                                  >  2:438385/1‑140 (MQ=255)
                                                                              aaGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAgg                                                <  1:451697/140‑1 (MQ=255)
                                                                               aGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGTGGCATAAAAAAAAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATAACGTCGGTAATGACGaaaagg                                               >  2:523199/1‑137 (MQ=255)
                                                                                   aTACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACAAAAGGCAGGt                                           <  2:188898/140‑1 (MQ=255)
                                                                                      cAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAAAGTGGCATAAAAAACAACTCCTTTTCCGGAGAACCCCAAAGGGGGAAAAGAAAATCAATACCGCCGGGAATGAAGAAAAGCAgggggg                                        >  2:466277/1‑136 (MQ=255)
                                                                                           tCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGGAAAAAAAAGGGGCATAAAAAACAACACCTTGTCCGGAGAAACCCCACGGGGGAAAAGAAAATCAAAACCGCCGGGAAAGACGAAAAGCAGGGGAGAAagg                                   >  2:718052/1‑140 (MQ=255)
                                                                                                  cATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAGAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACgag                            <  2:194600/140‑1 (MQ=255)
                                                                                                     cGGGAAAAACAGCGTGGCGGCATGGCGGGGGAAAAAAAGGGGGAAAACAAAAAACACCTTGTCCCGGGGAACCCAACGGGGAAAAACAAAATTAAAACCGTCGGTAAAAACGAAAAGGAGGGGGGAAGGGGAAAGAGAcc                         >  2:912861/1‑139 (MQ=255)
                                                                                                         aaaaaCAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCaa                     <  1:544256/140‑1 (MQ=255)
                                                                                                         aaaaaCAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCaa                     <  1:121830/140‑1 (MQ=255)
                                                                                                              cAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTa                <  1:367407/140‑1 (MQ=255)
                                                                                                                    ggcggcATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAAt          <  1:912861/140‑1 (MQ=255)
                                                                                                                            ggCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTa  <  1:523199/140‑1 (MQ=255)
                                                                                                                            ggCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTa  <  1:12739/140‑1 (MQ=255)
                                                                                                                                          cGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATg    >  1:798995/1‑124 (MQ=255)
                                                                                                                                          cGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATg    <  2:798995/124‑1 (MQ=255)
                                                                                                                                          |                                                                                                                             
AGACTGACATCGGCATTAAAATCACGTACCACATTAATGATCCCAGGCTGGATCAGATCCGTCGACAGATACGCAGCAAAGTCATACAAAATCAACGCCATCGGGAAAAACAGCGTGGCGGCATGGCGGGTAAAAAAACGTGGCATAACAAACAACTCCTTGTCCGGAGAACCCCAACGGGGAAAACGAAATTCAATACCGTCGGTAATGACGAAAGGCAGGTGAGAAGGGCAACGAGACTGCAAATGTACTGAATTTCATGTA  >  NC_000913/4568374‑4568637

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑