Predicted mutation
evidence seq id position mutation annotation gene description
RA CP000730 2,027,751 C→G V66L (GTA→CTA)  vraS ← sensor histidine kinase VraS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,027,7510CG98.4% 188.8 / NA 61V66L (GTA→CTA) vraSsensor histidine kinase VraS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  major base G (41/19);  minor base A (1/0);  total (42/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

TGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAG  >  CP000730/2027617‑2027888
                                                                                                                                      |                                                                                                                                         
tgtattgtatAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAAcc                                                                                                                                     <  2:640540/141‑1 (MQ=255)
tgtATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAAcc                                                                                                                                     <  2:223422/141‑1 (MQ=255)
tgtATGGTATAAATCTAACGTTTCACCATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAAcc                                                                                                                                     <  1:610699/141‑1 (MQ=255)
   aTGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACcaac                                                                                                                                  <  1:740705/141‑1 (MQ=255)
   aTGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACcaac                                                                                                                                  <  1:16695/141‑1 (MQ=255)
              cTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATAcaca                                                                                                                       <  2:810723/141‑1 (MQ=255)
                aaCGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACaat                                                                                                                     <  1:77664/141‑1 (MQ=255)
                   gTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGAGTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACaataat                                                                                                                  >  2:509949/1‑141 (MQ=255)
                     tccACTATACATCTTTATATCTTTGTCATTAATGCTAACTGTTTCGCCTTACATTGAACGCTCAACTTGCGTCTTAATCCAATCATGTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAatat                                                                                                                <  2:130806/139‑1 (MQ=255)
                      tCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATatg                                                                                                               >  1:441313/1‑141 (MQ=255)
                      tCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTAAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATatg                                                                                                               >  1:249009/1‑141 (MQ=255)
                       cACTATATATTTCTATATTTTGATCATTATTGGCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGTTTGATTTTGTAAGCGAGAGACGAACCAACAATAATACACAAAAatataa                                                                                                              >  1:236978/1‑139 (MQ=255)
                        aCTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATATAGTAAGCGAGTAGCGAACCAACAATAATACACAATAATatgag                                                                                                             >  1:428542/1‑140 (MQ=255)
                               atTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATgaga                                                                                                      <  1:958726/141‑1 (MQ=255)
                                        ttttGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaaa                                                                                             >  2:589804/1‑140 (MQ=255)
                                          ttGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaataa                                                                                           >  2:818445/1‑141 (MQ=255)
                                          ttGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaataa                                                                                           >  2:34122/1‑141 (MQ=255)
                                           tGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaataaa                                                                                          >  2:864747/1‑141 (MQ=255)
                                            gATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACGAACAATAATACACAATAATATGATGATGAGATTtaaaaataaaa                                                                                         >  2:509368/1‑141 (MQ=255)
                                            gATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTtaaaaataaaa                                                                                         >  2:89661/1‑141 (MQ=255)
                                                  tAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACCCAATAATATGATGATGAGATTTAAAAATACAAAAACTg                                                                                   >  2:60302/1‑141 (MQ=255)
                                                     tGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAAGAATACACAATAATATGATGATGAGCTTTAAAAATAAAAAAACTGGTa                                                                                >  1:762558/1‑141 (MQ=255)
                                                      gCCAACTGTTTCTCCTTCCATTAAACGCTCAATTTGCGTCTTAGTCCAATCATTTTGCTGGTTGATTTTATAACCGAGTAGCGAACCAACAATAATACACAATAATACAATGATTAGATTTATAAAAAAAAAGACAGGAAt                                                                               >  2:351469/1‑141 (MQ=255)
                                                         aaCTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAAATTTAAAAATAAAAAAACTGGATTTcc                                                                            >  2:385547/1‑141 (MQ=255)
                                                          aCTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGCACCAACAATCATACACAATACTATAATGATGAGATTTAAAAATAAAAAAACTGTGATTCCg                                                                           >  2:207317/1‑141 (MQ=255)
                                                          aCTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGACTAATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATTATGAGATTTAAAACTAAAAAAACTGGGATTCCg                                                                           >  2:355297/1‑141 (MQ=255)
                                                            tGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCTaa                                                                         >  2:311279/1‑141 (MQ=255)
                                                             gTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAat                                                                        >  2:147391/1‑141 (MQ=255)
                                                             gTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAat                                                                        >  2:854820/1‑141 (MQ=255)
                                                              tttCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGAATTCCGAata                                                                       >  1:548172/1‑141 (MQ=255)
                                                                 cGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATAttt                                                                    >  1:197170/1‑141 (MQ=255)
                                                                 cGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATAttt                                                                    >  1:223400/1‑141 (MQ=255)
                                                                 cGCCTTCAATTGAACGCTCAATTTGCGTCTTAGGCCAAGCATTTTGACAATTGATTTTACAACCGATTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACAGGAATTCCGAATAttt                                                                    >  2:701695/1‑141 (MQ=255)
                                                                   ccTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGTTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACGCTATAATATGATGATGAGATTGAAAAATAAAAAAACTGGTATTCCGAATATTtgt                                                                  >  2:544701/1‑141 (MQ=255)
                                                                   ccTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTtgt                                                                  >  2:842695/1‑141 (MQ=255)
                                                                   ccTTCCATTGAACGCTCAATTTGCGTCTTAATACAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAAACAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATAttttt                                                                  >  2:477592/1‑139 (MQ=255)
                                                                      tcgaTTGAACGCTCAATTTGCGTCTTAATCCAATCCTTTTGCTGATTGCGTTTGTAAGCGAATCGCGCACCACCAATAACACACACAAATATGATACTGAGATTTAAAAATAAAAAAACTGGTATTACGAATATTGGTGta                                                               >  2:481352/4‑141 (MQ=255)
                                                                              aCGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATCTTTGTGTATAAAACAt                                                       <  1:493021/141‑1 (MQ=255)
                                                                              aCGCTCAATTTGCGTCTTAAACCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAAAAAAAAAAAAAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACAt                                                       <  1:58021/141‑1 (MQ=255)
                                                                                   cAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACCATAATACACAATAATATGATTATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCtt                                                  <  1:197746/141‑1 (MQ=255)
                                                                                   cAATCTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCtt                                                  <  1:711796/141‑1 (MQ=255)
                                                                                          cGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTAGGGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATa                                           <  2:428542/141‑1 (MQ=255)
                                                                                                       tccttttGCTGATTGATTTTGTAAGCTAGTAGCGAACCAACGATAATACACAATAATATGATGATGAGATTTAAAAATAAAATAACTGCTATTCCGGATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACa                              <  1:605813/138‑1 (MQ=255)
                                                                                                       tCATTTTGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACa                              <  1:631118/141‑1 (MQ=255)
                                                                                                         aTTTTGCTGATTGATTTTGTAAGCGAATAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTATGTATAAAACATACCTTAAAAATAGAAGATATATTCaaa                            >  2:269393/1‑141 (MQ=255)
                                                                                                          ttttGCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaaa                           >  2:489113/1‑141 (MQ=255)
                                                                                                            ttGCTGATAGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATATTATGATGATGAGATTTAAAAATAAAAAAACTGGTAATCCGAATATTTGTGTATAAAACAGACCTTGAAAATAGATGATATTTACAAAAAc                         >  2:733334/1‑141 (MQ=255)
                                                                                                              gCTGATTGATTTTGTAAGCGAGTAGCGACCCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGGGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACtt                       >  1:640931/1‑141 (MQ=255)
                                                                                                              gCTGATTGATTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACtt                       >  2:778449/1‑141 (MQ=255)
                                                                                                                tgattgatTTTGTAAGCGAGTCGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACtttt                     >  1:516821/1‑140 (MQ=255)
                                                                                                                tgattgatTTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTCCAAAACCTCTa                     >  2:828682/1‑141 (MQ=255)
                                                                                                                   ttgattTTGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCg                  >  1:540220/1‑141 (MQ=255)
                                                                                                                          tGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACa           >  1:349182/1‑141 (MQ=255)
                                                                                                                          tGTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACa           >  1:349219/1‑141 (MQ=255)
                                                                                                                           gTAAGCGAGTCGCGAACCAACAATAATACACAACAAACTGATGTTGGGATTTAAAAATAACAAAACTGGAATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATAGATGAACaa          >  2:408743/1‑140 (MQ=255)
                                                                                                                           gTAAGCGAGTAGCGAACCAACAATAATACACAGTAATATGATAATAAGATTTAAAAATAAAAAAACTTGTATTCCGAATATTTGTGTATAAAAAATACCTTGAAAATAGATGATATTTAAAAAAACTTTATCAATGAACAg          >  2:407269/1‑141 (MQ=255)
                                                                                                                           gTAAGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAAAAg          >  2:46019/1‑141 (MQ=255)
                                                                                                                             aaGCGAGTAGCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATGGATGAAAAGaa        >  1:274630/1‑141 (MQ=255)
                                                                                                                              aGCGAGTAGCGAAACAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGaaa       <  1:129292/141‑1 (MQ=255)
                                                                                                                              aGCGAGGAGAGAACTAACAAGAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACGCGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGaca       <  2:659464/141‑3 (MQ=255)
                                                                                                                                   gTAGCGAACCAACAATAATACACAATAATATGATGATGAGATATAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAg  <  2:598809/141‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                         
TGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAG  >  CP000730/2027617‑2027888

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: