Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,809,875 T→A 10.6% intergenic (‑134/‑52) PP_3365 ← / → PP_3366 acetolactate synthase/LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,809,8750TA10.6% 150.4 / 6.9 54intergenic (‑134/‑52)PP_3365/PP_3366acetolactate synthase/LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (24/24);  new base A (4/2);  total (28/26)
Fisher's exact test for biased strand distribution p-value = 6.70e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCGGCCTTGGCCATTTGGGGTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGCCCGCGC  >  NC_002947/3809728‑3810020
                                                                                                                                                   |                                                                                                                                                 
gcggcCTTGGCCATTTGGGGTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAg                                                                                                                                                 <  1:1923108/150‑1 (MQ=255)
  ggcCTTGGCCATTTGGGGTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCa                                                                                                                                               <  1:1000604/150‑1 (MQ=255)
    ccTTGGCCATTTGGGGTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATc                                                                                                                                             >  2:1677256/1‑150 (MQ=255)
     cTTGGCCATTTGGGGTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATca                                                                                                                                            <  1:346882/150‑1 (MQ=255)
                agggTACTGCTTCAAAATCTTTGTGGGAGTGCAGATTTCTTCCGCTGCGAGACTGATATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCATCTCGTTAATAATAATAAATATAATGTTCTAATGCTTAGCATCACAGTTCGTTAt                                                                                                                                 <  1:448110/149‑1 (MQ=255)
                  ggTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGTATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGa                                                                                                                               <  2:1090005/150‑1 (MQ=255)
                         ccTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGAATTGTAAATGATTGAGTTAATAATAATATATATATTGTTATGATGCTTAGCATCTCAGTTCGTTATGAATGCATc                                                                                                                        >  1:1468820/1‑150 (MQ=255)
                             aaaaTCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGc                                                                                                                    >  2:712661/1‑150 (MQ=255)
                                       ggggATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTa                                                                                                          <  2:826298/149‑1 (MQ=255)
                                                 gATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCACTCTGGTTAATAATCGTGAAGATGCCGATATGGCGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGATAGCACCCCTCa                                                                                                >  1:895845/1‑150 (MQ=255)
                                                 gATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGGAGGCCCTCTGGTTAATAATCAAGTCTAGATCATTATGATTCTAGTTATCACGGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCa                                                                                                >  1:895376/1‑150 (MQ=255)
                                                   tttATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCTTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAAt                                                                                              <  1:72041/150‑1 (MQ=255)
                                                      attaAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGaa                                                                                           <  2:1440435/150‑1 (MQ=255)
                                                             tGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAg                                                                                    <  1:784670/150‑1 (MQ=255)
                                                                   aCTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTg                                                                              >  2:1638541/1‑150 (MQ=255)
                                                                    cTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTCATAATAATCAATAGATTGTTATGATGCTTAGCATCACAGTTCCTTATGAATGCATCCCGCATGAAAGGTATCACCCCTCAATGAACCTCAAGGCATTgc                                                                             <  2:997954/150‑1 (MQ=255)
                                                                     tGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTgcg                                                                            >  2:701375/1‑150 (MQ=255)
                                                                     tGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTgcg                                                                            >  2:1042044/1‑150 (MQ=255)
                                                                      gagaTGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTgcgc                                                                           <  1:1042044/150‑1 (MQ=255)
                                                                       agaTGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAg                                                                                                                                                 >  1:1366062/1‑79 (MQ=255)
                                                                       agaTGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAg                                                                                                                                                 <  2:1366062/79‑1 (MQ=255)
                                                                       agaTGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCgct                                                                          <  2:1827376/150‑1 (MQ=255)
                                                                       agaTGTTGCAGGATGTCTCAGCGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCgct                                                                          >  1:1778430/1‑150 (MQ=255)
                                                                          tGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCgctgct                                                                       <  1:1717086/150‑1 (MQ=255)
                                                                            ttGCAGGATGTCTCAGCGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCtgt                                                                     <  2:1778430/150‑1 (MQ=255)
                                                                                        tcAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTc                                                         >  1:1765172/1‑150 (MQ=255)
                                                                                        tcAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTc                                                         <  1:30296/150‑1 (MQ=255)
                                                                                         cAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTcc                                                        <  2:1468820/150‑1 (MQ=255)
                                                                                            tGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGc                                                     >  1:655779/1‑150 (MQ=255)
                                                                                                 cgcATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGc                                                >  1:1244517/1‑150 (MQ=255)
                                                                                                            cccTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCaa                                     >  1:1817594/1‑150 (MQ=255)
                                                                                                            cccTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCaa                                     >  1:901641/1‑150 (MQ=255)
                                                                                                              ctctGGTTAATAATAATAAATATGTTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAGAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACGAAgg                                   >  2:948339/1‑150 (MQ=255)
                                                                                                                     taataataataaATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGAGTCAGAAAGCAACATCGAAATCTTTCGGCAAGGCAGCTTCACCAAGGCCGCgca                            <  1:712661/150‑1 (MQ=255)
                                                                                                                        taataataaATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCgcagca                         >  2:665812/1‑150 (MQ=255)
                                                                                                                         aataataaATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCAc                        <  1:945299/150‑1 (MQ=255)
                                                                                                                           taataaATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCt                      >  1:1340808/1‑150 (MQ=255)
                                                                                                                            aataaataTATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTg                     <  2:1803006/150‑1 (MQ=255)
                                                                                                                              taaataTATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGca                   >  2:1502911/1‑150 (MQ=255)
                                                                                                                               aaataTATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGcac                  >  1:1879716/1‑150 (MQ=255)
                                                                                                                                      ttGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGccc           >  1:68231/1‑150 (MQ=255)
                                                                                                                                       tGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCtt                                           <  2:1478207/117‑1 (MQ=255)
                                                                                                                                       tGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCtt                                           >  1:1478207/1‑117 (MQ=255)
                                                                                                                                          tgtgatgCTAAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGaa                                                               <  1:262773/92‑1 (MQ=255)
                                                                                                                                          tgtgatgCTAAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGaa                                                               >  2:262773/3‑94 (MQ=255)
                                                                                                                                          tgtgatgCTAAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGcc       >  1:41938/3‑150 (MQ=255)
                                                                                                                                          tgtgatgCTAAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGc        >  2:126571/3‑149 (MQ=255)
                                                                                                                                          tgtgatgCTAAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGc        <  1:126571/147‑1 (MQ=255)
                                                                                                                                           atgatgCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTGAGATTCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGACATCGTCTGGCGAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGccc      >  1:347381/1‑150 (MQ=255)
                                                                                                                                            tgatgCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGCCcg     >  2:1236513/1‑150 (MQ=255)
                                                                                                                                             gatgCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCg                                                       >  2:1825335/1‑99 (MQ=255)
                                                                                                                                             gatgCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCg                                                       <  1:1825335/99‑1 (MQ=255)
                                                                                                                                               tgCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGCCCgcgc  <  1:665812/150‑1 (MQ=255)
                                                                                                                                               tgCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGCCCgcgc  <  1:434722/150‑1 (MQ=255)
                                                                                                                                                  ttAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCtgtg                                                                    <  1:751205/81‑1 (MQ=255)
                                                                                                                                                  ttAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCtgtg                                                                    >  2:751205/1‑81 (MQ=255)
                                                                                                                                                   |                                                                                                                                                 
GCGGCCTTGGCCATTTGGGGTACTACCTCAAAATCTTTGTGGGATTGCAGATTTATTAAGCTGCGTGACTGAGATGTTGCAGGATGTCTCAGTGGCGCGCATCGTAGGCCCTCTGGTTAATAATAATAAATATATTGTTATGATGCTTAGCATCACAGTTCGTTATGAATGCATCCCGCATGAAAGGTAGCACCCCTCAATGAACCTCAAGGCATTGCGCTGCTGTGTCGAAATCGTCCGGCAAGGCAGCTTCACCAAGGCCGCGCAGCACCTGCACATCGCCCAGCCCGCGC  >  NC_002947/3809728‑3810020

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