Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 2,581,941 A→T T330S (ACC→TCC)  acrD → multidrug efflux RND transporter permease AcrD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092732,581,9410AT79.2% 129.8 / 30.2 53T330S (ACC→TCC) acrDmultidrug efflux RND transporter permease AcrD
Reads supporting (aligned to +/- strand):  ref base A (5/6);  new base T (20/22);  total (25/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.24e-01

AGCCAGCCTCCGGGCTGGGGGTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGCCGTGCCGG  >  NZ_CP009273/2581804‑2582073
                                                                                                                                         |                                                                                                                                    
agccagccTCCGGGCTGGGGGTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAaccac                                                                                                                                     >  1:276305/1‑139 (MQ=255)
     gccTCCGGGCTGGGGGTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGt                                                                                                                                <  2:683828/139‑1 (MQ=255)
      ccTCCGGGCTGGGGGTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGtt                                                                                                                               >  2:605209/1‑139 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGc                                                                                                                      <  1:241288/137‑1 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGc                                                                                                                      <  1:605209/137‑1 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCt                                                                                                                    >  2:328271/1‑139 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCt                                                                                                                    >  2:250396/1‑139 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCt                                                                                                                    <  2:276305/139‑1 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCt                                                                                                                    <  1:771986/139‑1 (MQ=255)
                 ggggTAAAACTGGCCTCCGGCGCTAACGAAAGGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCt                                                                                                                    >  1:575365/1‑139 (MQ=255)
                  gggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGt                                                                                                                                <  2:432718/126‑1 (MQ=255)
                  gggTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGt                                                                                                                                >  1:432718/1‑126 (MQ=255)
                            ggCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGAc                                                                                                         >  2:296256/1‑139 (MQ=255)
                             gCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACg                                                                                                        >  1:619163/1‑139 (MQ=255)
                             gCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACg                                                                                                        >  2:399946/1‑139 (MQ=255)
                                   ggCGCTAACGAAAGGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGa                                                                                                  <  2:575365/139‑1 (MQ=255)
                                                            aGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGctct                                                                         >  1:493487/1‑139 (MQ=255)
                                                                    cTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTcc                                                                 <  1:819478/139‑1 (MQ=255)
                                                                       aaTCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCt                                                                <  1:385134/137‑1 (MQ=255)
                                                                       aaTCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCt                                                                <  2:600543/137‑1 (MQ=255)
                                                                       aaTCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCg                                                              <  1:399946/139‑1 (MQ=255)
                                                                         tCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGtt                                                            <  1:485584/139‑1 (MQ=255)
                                                                         tCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGt                                                             >  2:485584/1‑138 (MQ=255)
                                                                           gTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTa                                                           <  1:500947/138‑1 (MQ=255)
                                                                            tgtcGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATAGACCTGGTTTTCCTCGTTATg                                                         >  2:309169/3‑139 (MQ=255)
                                                                            tctcGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATg                                                         >  1:742075/1‑139 (MQ=255)
                                                                                gacgaGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGt                                                        <  2:619163/136‑1 (MQ=255)
                                                                                gacgaGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTa                                                       <  1:361840/137‑1 (MQ=255)
                                                                                   gaGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGt                                                  <  1:252602/139‑1 (MQ=255)
                                                                                   gaGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGt                                                  >  2:703015/1‑139 (MQ=255)
                                                                                      cTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCg                                                              <  1:328120/124‑1 (MQ=255)
                                                                                      cTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCg                                                              >  2:328120/1‑124 (MQ=255)
                                                                                           gcAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCaa                                          <  1:446958/139‑1 (MQ=255)
                                                                                                 tttCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTc                                    >  1:191985/1‑139 (MQ=255)
                                                                                                    cccGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCcgc                                 >  2:215523/1‑139 (MQ=255)
                                                                                                     ccGCATGGACTGGAATACAAGGTTGCGTATGAATCCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAACCGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCcgcg                                <  1:309169/139‑1 (MQ=255)
                                                                                                      cGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCgcgc                               <  2:281627/139‑1 (MQ=255)
                                                                                                      cGCATGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCgcgc                               <  1:328271/139‑1 (MQ=255)
                                                                                                         aTGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCAc                            >  1:139503/1‑139 (MQ=255)
                                                                                                         aTGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCAc                            >  1:504540/1‑139 (MQ=255)
                                                                                                         aTGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCAc                            >  2:718593/1‑139 (MQ=255)
                                                                                                          tGGACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACg                           <  2:742075/139‑1 (MQ=255)
                                                                                                            gACTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGc                          <  1:703015/138‑1 (MQ=255)
                                                                                                             aCTGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCt                         >  1:742332/1‑138 (MQ=255)
                                                                                                               tGGAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGa                       >  1:504429/1‑138 (MQ=255)
                                                                                                                 gAATACAAGGTGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATa                     <  2:422115/138‑1 (MQ=255)
                                                                                                                 gAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATa                     <  2:191985/138‑1 (MQ=255)
                                                                                                                           tGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACgctg                                                                                          <  2:233884/59‑1 (MQ=255)
                                                                                                                           tGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACgctg                                                                                          >  1:233884/1‑59 (MQ=255)
                                                                                                                           tGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGc          >  2:108899/1‑139 (MQ=255)
                                                                                                                           tGGCGTATGAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGc          >  1:238567/1‑139 (MQ=255)
                                                                                                                           tGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGc          <  1:296256/139‑1 (MQ=255)
                                                                                                                                tATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGCCGTGc     <  2:821348/139‑1 (MQ=255)
                                                                                                                                   gAAACCTCCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGCCGTGCCgg  >  1:565835/1‑139 (MQ=255)
                                                                                                                                         |                                                                                                                                    
AGCCAGCCTCCGGGCTGGGGGTAAAACTGGCCTCCGGCGCTAACGAAATGGCGACAGCGGAGCTGGTGCTCAATCGTCTCGACGAGCTGGCGCAGTATTTCCCGCATGGACTGGAATACAAGGTGGCGTATGAAACCACCTCGTTTGTTAAAGCCTCCATTGAAGACGTGGTGAAAACGCTGCTGGAAGCTATCGCTCTGGTTTTCCTCGTTATGTATCTGTTCCTGCAAAACTTCCGCGCCACGCTGATACCCACTATCGCCGTGCCGG  >  NZ_CP009273/2581804‑2582073

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: ‑