Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 3,729,296 A→C 100% K320Q (AAG→CAG)  xylR → xylose divergent operon transcriptional activator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092733,729,2960AC100.0% 203.4 / NA 55K320Q (AAG→CAG) xylRxylose divergent operon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (31/24);  total (31/24)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTT  >  CP009273/3729151‑3729441
                                                                                                                                                 |                                                                                                                                                 
cATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCg                                                                                                                                               >  2:135305/1‑150 (MQ=255)
     agcGGCGCTCAACATATTACCGCCCGCGGCCCGACCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTa                                                                                                                                          <  2:837508/148‑1 (MQ=255)
           gcTAAACATATTATCCCCCGCTGCCCGCCCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAaagaag                                                                                                                                    <  2:685557/150‑1 (MQ=255)
             caaaCAAATTTCCGCCCGCGGCCCGCTCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGAACAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAagag                                                                                                                                  <  1:479545/148‑1 (MQ=255)
               aaaaGATTACCGCCCGCGGCCCGCCCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAggt                                                                                                                                <  1:477238/147‑1 (MQ=255)
                  aGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAggtggg                                                                                                                             >  1:600634/1‑150 (MQ=255)
                   taTTACCGCTCGCGGCCCGCTCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAggtgggt                                                                                                                            <  1:16497/149‑1 (MQ=255)
                             cgctGCCCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAAccatcc                                                                                                                  <  1:975719/150‑1 (MQ=255)
                                   ccGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATccatgcca                                                                                                            >  1:892695/1‑150 (MQ=255)
                                   ccGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATccatgcca                                                                                                            >  2:424435/1‑150 (MQ=255)
                                    gaacaccgccgTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAACGTTTTAAAGAAGAGGTGGGTGAAACCATccatgccat                                                                                                           <  2:662545/145‑1 (MQ=255)
                                    cGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATccatgccat                                                                                                           >  1:504662/1‑150 (MQ=255)
                                        cccGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGAtt                                                                                                       <  2:566820/150‑1 (MQ=255)
                                           gccgTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCAt                                                                                                    >  1:642499/1‑150 (MQ=255)
                                           gccgTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCAt                                                                                                    >  1:277448/1‑150 (MQ=255)
                                              gTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGcc                                                                                                 <  1:406675/150‑1 (MQ=255)
                                                  ttCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCgag                                                                                              <  2:581555/149‑1 (MQ=255)
                                                              aTTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAg                                                                                 >  2:214876/1‑150 (MQ=255)
                                                                   aTTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAgcgcgc                                                                            <  1:941146/150‑1 (MQ=255)
                                                                    ttCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCa                                                                           <  1:860703/150‑1 (MQ=255)
                                                                      cGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAg                                                                          <  1:755109/149‑1 (MQ=255)
                                                                       gTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTc                                                                        >  2:518640/1‑150 (MQ=255)
                                                                        tAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTct                                                                       <  2:539267/150‑1 (MQ=255)
                                                                        tAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTct                                                                       <  2:621277/150‑1 (MQ=255)
                                                                          aTCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTctgc                                                                     >  1:932762/1‑150 (MQ=255)
                                                                              cGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTgg                                                                                       >  1:137314/1‑128 (MQ=255)
                                                                              cGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGAt                                                                 <  1:135305/150‑1 (MQ=255)
                                                                              cGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGAt                                                                 <  1:167214/150‑1 (MQ=255)
                                                                               gCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGga                                                                                      <  2:137314/128‑1 (MQ=255)
                                                                                ccTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTct                                                                       >  2:879392/1‑142 (MQ=255)
                                                                                 cTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTctg                                                                      <  1:879392/142‑1 (MQ=255)
                                                                                   gTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGa                                                                  >  1:631960/1‑144 (MQ=255)
                                                                                    tAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGAt                                                                 <  2:631960/144‑1 (MQ=255)
                                                                                    tAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAac                                                           >  1:285449/1‑150 (MQ=255)
                                                                                        gggATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAaccacc                                                       >  2:300314/1‑150 (MQ=255)
                                                                                                          gTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGata                                     >  1:112528/1‑150 (MQ=255)
                                                                                                          gTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGata                                     >  1:600863/1‑150 (MQ=255)
                                                                                                             cTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATc                                   <  2:285449/149‑1 (MQ=255)
                                                                                                             cTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCg                                  >  1:291845/1‑150 (MQ=255)
                                                                                                              tGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCg                                  >  2:513013/1‑149 (MQ=255)
                                                                                                                gATGCGGTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCa                                >  1:742259/1‑149 (MQ=255)
                                                                                                                     ggTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAAtgtg                          >  2:410971/1‑150 (MQ=255)
                                                                                                                     ggTCGGGATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAAtgtg                          >  2:553610/1‑150 (MQ=255)
                                                                                                                     ggTCGGGATCTCGCGCTCCAATCCTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTATGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAAtgtg                          >  2:14492/1‑150 (MQ=255)
                                                                                                                         gggATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGt                      >  2:411652/1‑150 (MQ=255)
                                                                                                                           gATCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTa                    >  2:559464/1‑150 (MQ=255)
                                                                                                                            aTCTCGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTAt                   >  2:902837/1‑150 (MQ=255)
                                                                                                                             tctcGCGCTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATc                  >  1:76161/1‑150 (MQ=255)
                                                                                                                                 gcgcTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATc                  <  1:559020/146‑1 (MQ=255)
                                                                                                                                    cTCCAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCt           <  2:277448/150‑1 (MQ=255)
                                                                                                                                      ccAATCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTg          >  2:987614/1‑149 (MQ=255)
                                                                                                                                         aTCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAat      <  1:46413/150‑1 (MQ=255)
                                                                                                                                          tCTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAata     >  1:838000/1‑150 (MQ=255)
                                                                                                                                           cTTGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAatat    >  1:792245/1‑150 (MQ=255)
                                                                                                                                             tGAGCAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATAttt  >  2:224742/1‑150 (MQ=255)
                                                                                                                                              gagcAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATACCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAatat    <  2:344861/147‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                 
CATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATGCGGTCGGGATCTCGCGCTCCAATCTTGAGAAGCGTTTTAAAGAAGAGGTGGGTGAAACCATCCATGCCATGATTCATGCCGAGAAGCTGGAGAAAGCGCGCAGTCTGCTGATTTCAACCACCTTGTCGATCAATGAGATATCGCAAATGTGCGGTTATCCATCGCTGCAATATTT  >  CP009273/3729151‑3729441

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑