Predicted mutation
evidence seq id position mutation annotation gene description
RA NZ_CP009273 1,994,358 A→G S50P (TCC→CCC)  fliZ ← flagella biosynthesis regulatory protein FliZ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NZ_CP0092731,994,3580AG92.6% 170.7 / 5.6 54S50P (TCC→CCC) fliZflagella biosynthesis regulatory protein FliZ
Reads supporting (aligned to +/- strand):  ref base A (1/3);  new base G (20/30);  total (21/33)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.29e-01

CGAAAAAATCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGAAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTAAAGTCTTTAAGATAGCGGCTTAATGGCCGTCTTTTC  >  NZ_CP009273/1994244‑1994488
                                                                                                                  |                                                                                                                                  
cGAAAAAATCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTAtttt                                                                                                            >  1:458859/1‑139 (MQ=255)
 gAAAAAATCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTg                                                                                                           <  2:7400/139‑1 (MQ=255)
 gAAAAAATCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTg                                                                                                           <  1:555059/139‑1 (MQ=255)
  aaaaaaTCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGc                                                                                                          >  2:716053/1‑139 (MQ=255)
       aTCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTcg                                                                                                     <  1:738668/139‑1 (MQ=255)
       aTCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTcg                                                                                                     <  1:571574/139‑1 (MQ=255)
       aTCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTcg                                                                                                     <  2:505395/139‑1 (MQ=255)
                cGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACt                                                                                               <  1:640452/136‑1 (MQ=255)
                cGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAg                                                                                            >  1:676394/1‑139 (MQ=255)
                          tGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGaa                                                                                                 <  1:463822/124‑1 (MQ=255)
                          tGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGaa                                                                                                 <  1:562973/124‑1 (MQ=255)
                          tGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGaa                                                                                                 >  2:463822/1‑124 (MQ=255)
                          tGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGaa                                                                                                 >  2:562973/1‑124 (MQ=255)
                          tGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGAt                                                                                  >  1:32557/1‑139 (MQ=255)
                                    cGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAg                                                                              >  1:504155/1‑133 (MQ=255)
                                    cGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAg                                                                              <  2:504155/133‑1 (MQ=255)
                                    cGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAAtt                                                                         >  1:423603/1‑138 (MQ=255)
                                      cAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGCTTTTATTCACTATTTTGCCGTCGCGAACTCAGGTAATGCGATCGAGTAATTTAc                                                                      >  1:372167/1‑139 (MQ=255)
                                         aaTCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTAtt                                                                                                                     <  2:550945/89‑1 (MQ=255)
                                         aaTCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTAtt                                                                                                                     >  1:550945/1‑89 (MQ=255)
                                             ggCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATg                                                               <  2:759920/139‑1 (MQ=255)
                                              gCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGAAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATgc                                                              >  1:63095/1‑139 (MQ=255)
                                               cacaATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGAAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATgcg                                                             <  2:102674/139‑1 (MQ=255)
                                                   aTGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCa                                                         <  1:5065/139‑1 (MQ=255)
                                                    tGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCaa                                                        >  1:124517/1‑139 (MQ=255)
                                                      ccgccCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAAt                                                       <  1:716053/138‑1 (MQ=255)
                                                      ccgccCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGAAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAAt                                                       <  2:234779/138‑1 (MQ=255)
                                                         cccATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGaa                                                                                                 <  1:286581/93‑1 (MQ=255)
                                                         cccATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGaa                                                                                                 >  2:286581/1‑93 (MQ=255)
                                                         cccATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTa                                                                                         <  1:728773/101‑1 (MQ=255)
                                                         cccATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTa                                                                                         >  2:728773/1‑101 (MQ=255)
                                                         cccATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGt                                                   >  2:528937/1‑139 (MQ=255)
                                                         cccATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGt                                                   >  1:742096/1‑139 (MQ=255)
                                                              gATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTcg                                                                                                     <  2:396919/84‑1 (MQ=255)
                                                              gATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTcg                                                                                                     >  1:396919/1‑84 (MQ=255)
                                                              gATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAg                                                                              <  1:583412/107‑1 (MQ=255)
                                                              gATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAg                                                                              >  2:583412/1‑107 (MQ=255)
                                                               aTTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGc                                              <  2:742096/138‑1 (MQ=255)
                                                               aTTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGc                                              <  2:676394/138‑1 (MQ=255)
                                                               aTTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCt                                             <  1:101507/139‑1 (MQ=255)
                                                                      ttCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTa                                      <  2:423603/139‑1 (MQ=255)
                                                                         cGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAGGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:341251/138‑1 (MQ=255)
                                                                         cGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:32557/138‑1 (MQ=255)
                                                                         cGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:607410/138‑1 (MQ=255)
                                                                         cGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:124517/138‑1 (MQ=255)
                                                                         cGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:72934/138‑1 (MQ=255)
                                                                         cGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGAAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:63095/138‑1 (MQ=255)
                                                                                               agcagcGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    <  2:549691/116‑1 (MQ=255)
                                                                                               agcagcGTGTCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTaaa                                    >  1:549691/1‑116 (MQ=255)
                                                                                                        tCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTa                                      >  2:186299/1‑105 (MQ=255)
                                                                                                        tCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTa                                      <  1:186299/105‑1 (MQ=255)
                                                                                                        tCCAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTAAAGTCTTTAAGATAGCGGCTTAATGGCCGTCttt    >  2:486809/1‑139 (MQ=255)
                                                                                                          cAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTAAAGTCTTTAAGATAGCGGCTTAATGGCCGTCTTTTc  <  1:528937/139‑1 (MQ=255)
                                                                                                          cAGGCGGGGAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTAAAGTCTTTAAGATAGCGGCTTAATGGCCGTCTTTTc  <  2:659319/139‑1 (MQ=255)
                                                                                                                  |                                                                                                                                  
CGAAAAAATCACTCTGCGTTTTGCAATGTAAATCACCGCAAAATCGGCACAATGCCGCCCATGATTTTTGTTCCGTTTGCCAGCCATTTTCATCAAGCAGCGTGTCCAGGCGGGAAATCTCGATTTTATTCACTATTTTGCCGTCGCGAACTAAGGTAATGCGATCGAGTAATTTACGGCAATGCGCGCAATGGGTCTGGCTGTGTTTAAAGTCTTTAAGATAGCGGCTTAATGGCCGTCTTTTC  >  NZ_CP009273/1994244‑1994488

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑