Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,868,540 A→T 7.1% intergenic (+79/‑852) PP_2520 → / → PP_2522 hypothetical protein/transposase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,868,5400AT 7.1% 163.3 / 2.7 56intergenic (+79/‑852)PP_2520/PP_2522hypothetical protein/transposase
Reads supporting (aligned to +/- strand):  ref base A (27/25);  new base T (2/2);  total (29/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.84e-01

CCTCATGCGCTGCTGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTACCACT  >  NC_002947/2868396‑2868684
                                                                                                                                                |                                                                                                                                                
ccTCATGCGCTGCTGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGc                                                                                                                                               >  1:347723/1‑148 (MQ=255)
     tGCGCTGCTGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGc                                                                                                                                         >  3:253253/1‑149 (MQ=255)
        gctgctGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATg                                                                                                                                                >  3:309772/1‑139 (MQ=255)
        gctgctGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATg                                                                                                                                                <  4:309772/139‑1 (MQ=255)
        gctgctGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGt                                                                                                                                      >  5:311185/1‑149 (MQ=255)
        gcagctgTCGTTGTCAGGCTGCCTGTGGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGt                                                                                                                                      <  8:131921/146‑1 (MQ=255)
         ctgctgGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGtt                                                                                                                                     >  8:285621/1‑149 (MQ=255)
            ctgGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGaa                                                                                                                                  <  1:333922/149‑1 (MQ=255)
            ctgGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGa                                                                                                                                   >  2:218262/1‑148 (MQ=255)
               gCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAAc                                                                                                                                 <  7:159939/147‑1 (MQ=255)
               gCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACga                                                                                                                               <  4:326682/149‑1 (MQ=255)
               gCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACga                                                                                                                               <  1:218262/149‑1 (MQ=255)
                          cTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCgaag                                                                                                                    <  4:286865/149‑1 (MQ=255)
                           ttCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCgaag                                                                                                                    >  5:151566/1‑148 (MQ=255)
                              cTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGt                                                                                                                <  3:257411/149‑1 (MQ=255)
                                ggTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTAc                                                                                                              >  4:225726/1‑149 (MQ=255)
                                 gTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATtct                                                                                                                         <  4:105223/137‑1 (MQ=255)
                                 gTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATtct                                                                                                                         >  3:105223/1‑137 (MQ=255)
                                 gTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTAc                                                                                                              <  2:347723/148‑1 (MQ=255)
                                 gTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTAc                                                                                                              <  6:243391/148‑1 (MQ=255)
                                    atgatgaCGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTc                                                                                                           >  1:11552/1‑148 (MQ=255)
                                     tgatgaCGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTccc                                                                                                         <  2:79268/149‑1 (MQ=255)
                                       atgaCGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGt                                                                                                                <  2:179757/140‑1 (MQ=255)
                                       atgaCGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGt                                                                                                                >  1:179757/1‑140 (MQ=255)
                                            gCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCg                                                                                                  >  2:129023/1‑149 (MQ=255)
                                                 tGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAg                                                                                             <  3:193308/149‑1 (MQ=255)
                                                    tGATTTGTTTCTGAATGTGTGATCTCTCCCGCTGAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGc                                                                                          <  2:11552/149‑1 (MQ=255)
                                                           tttCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCg                                                                                   >  2:262714/1‑149 (MQ=255)
                                                           tttCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCg                                                                                   >  8:174693/1‑149 (MQ=255)
                                                             tCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGc                                                                                  <  7:174693/148‑1 (MQ=255)
                                                              cTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCTCTTGATCGGCAAGGGCAAAGTCGCt                                                                                 <  3:225726/148‑1 (MQ=255)
                                                                        gATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTcc                                                                      >  2:56482/1‑149 (MQ=255)
                                                                            tctcCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCgaagaa                                                                                                                  >  2:338495/1‑101 (MQ=255)
                                                                            tctcCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCgaagaa                                                                                                                  <  1:338495/101‑1 (MQ=255)
                                                                              tcCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTccc                                                                     <  1:56482/144‑1 (MQ=255)
                                                                              tcCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCgct                                                                >  5:327176/1‑149 (MQ=255)
                                                                                          ttCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGcc                                                    >  2:271883/1‑149 (MQ=255)
                                                                                            cGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGcc                                                    <  1:271883/147‑1 (MQ=255)
                                                                                              tCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGc                                                 >  4:67487/1‑148 (MQ=255)
                                                                                                    agaCTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAg                                          <  6:327176/149‑1 (MQ=255)
                                                                                                          ccccTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTggg                                     <  6:151566/148‑1 (MQ=255)
                                                                                                           cccTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCTTGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAGCCAGCTGGGCa                                   >  2:164497/1‑149 (MQ=255)
                                                                                                           cacTCGCCGTCGTCTGGGGATTGATACAGGGACTTCCTTGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTAACGCGCTGGCTGACGTGCCGGCGAACCAGCTgggaa                                   >  2:170237/3‑147 (MQ=255)
                                                                                                            ccTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGCCAt                                  >  5:127632/1‑149 (MQ=255)
                                                                                                            ccTCGCCGTCGGCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCAt                                  >  6:339252/1‑149 (MQ=255)
                                                                                                                gCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCg                                <  6:311185/147‑1 (MQ=255)
                                                                                                                      gtcTGGGGATTGATACAGGGCCTTCCTTGCAAACTCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGAATACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTAt                        <  1:170237/149‑1 (MQ=255)
                                                                                                                      gtcTGGGGATTGATACAGGGCCTTCCTTGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTAt                        <  1:164497/149‑1 (MQ=255)
                                                                                                                                 gATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATg              <  5:339252/148‑1 (MQ=255)
                                                                                                                                        ggCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTAc      >  5:293079/1‑149 (MQ=255)
                                                                                                                                         gCCTTCCATTCAAACGCTTTTGAAAGAGATTCTCTAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCTAACCAGATGGGCATCGCAGTCTATGGCAACGATGGCAGATAc      <  8:338114/148‑1 (MQ=255)
                                                                                                                                         gCCTTCAATGCAAACGATGTTGAACGAGATTATCTAAGAAGTACGTCCCTTGATCGTCAATGGCAAAGTCGCTGACTACATTCCAGAGCTGTCTGACGTGCCGGAGAACCAGCTGGGAATCGCTGTCTATGGGATAGATGGCAGTTAc      >  7:338114/1‑148 (MQ=255)
                                                                                                                                            ttCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTACCACt  >  2:118576/1‑149 (MQ=255)
                                                                                                                                            ttCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTACCACt  >  8:209563/1‑149 (MQ=255)
                                                                                                                                            ttCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTACCACt  >  2:114289/1‑149 (MQ=255)
                                                                                                                                            ttCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTACCACt  >  8:337290/1‑149 (MQ=255)
                                                                                                                                                |                                                                                                                                                
CCTCATGCGCTGCTGGCGTTGTCAGGCTTCCTGGTGATGATGACGCTTATGGTGATTTGTTTCTGAATGTGTGATCTCTCCCGCTCAGTCTTCGTCAAGAAGACTGCCCCTCGCCGTCGTCTGGGGATTGATACAGGGCCTTCCATGCAAACGCTGTTGAACGAGATTCTCGAAGAAGTACGTCCCTTGATCGGCAAGGGCAAAGTCGCTGACTACATTCCCGCGCTGGCTGACGTGCCGGCGAACCAGCTGGGCATCGCTGTCTATGGCAACGATGGCAGTTACCACT  >  NC_002947/2868396‑2868684

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑