Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,379,304 A→T 7.8% V282E (GTA→GAA)  tnpS ← cointegrate resolution protein S

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,379,3040AT 7.8% 146.0 / 3.3 51V282E (GTA→GAA) tnpScointegrate resolution protein S
Reads supporting (aligned to +/- strand):  ref base A (26/21);  new base T (2/2);  total (28/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.63e-01

CTGGGGTGTGCCGATATTAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCTGATCAGGC  >  NC_002947/3379161‑3379442
                                                                                                                                               |                                                                                                                                          
cTGGGGTGTGCCGATATTAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAg                                                                                                                                       <  2:97945/149‑1 (MQ=255)
    ggTGTGCCGATATTAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGtca                                                                                                                                   >  8:238320/1‑149 (MQ=255)
         gCCGATATTTATGAGAAGCTGAAAGTTGACACAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGATGCAAGGCCGCAAAAGGATATGGCGGGGTCGATGTAGCGGATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCTTCAAg                                                                                                                              >  2:88741/1‑149 (MQ=255)
             atatTAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCaa                                                                                                                               >  4:128268/1‑144 (MQ=255)
             atatTAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCaa                                                                                                                               <  3:128268/144‑1 (MQ=255)
                ttAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTg                                                                                                                        <  3:69070/148‑1 (MQ=255)
                  aaTGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGTAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGtcat                                                                                                                                  <  1:18318/136‑1 (MQ=255)
                  aaTGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGTAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGtcat                                                                                                                                  >  2:18318/1‑136 (MQ=255)
                      agaAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATccc                                                                                                                 <  5:75660/149‑1 (MQ=255)
                          gCTGAAAGTTGTCCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGc                                                                                                              >  5:105107/1‑148 (MQ=255)
                                     tcccAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTgg                                                                                                  <  6:105107/148‑1 (MQ=255)
                                       ccAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCGGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTCGctgcgccg                                                                                                >  3:82903/1‑142 (MQ=255)
                                        cAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGcc                                                                                                >  1:279434/1‑148 (MQ=255)
                                         aaaGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGccc                                                                                               >  2:222672/1‑148 (MQ=255)
                                         aaaGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGccc                                                                                               >  3:224129/1‑148 (MQ=255)
                                              gCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAgg                                                                                         <  2:86537/149‑1 (MQ=255)
                                                  gCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGaa                                                                                     <  5:109238/149‑1 (MQ=255)
                                                  gCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGaa                                                                                     <  6:148752/149‑1 (MQ=255)
                                                  gCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGCCGGGGTCTATGTAGCGCATGGCAGACTTGATGACTTTCCAGCCTACATAGCTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGaa                                                                                     <  1:88741/149‑1 (MQ=255)
                                                     tGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGcc                                                                                  >  6:112880/1‑149 (MQ=255)
                                                           tCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGgcg                                                                            >  1:150249/1‑149 (MQ=255)
                                                                    ggTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATg                                                                   <  2:279434/149‑1 (MQ=255)
                                                                          gCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGgt                                                             <  1:131574/149‑1 (MQ=255)
                                                                              cAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCaa                                                                                                                               <  8:169587/79‑1 (MQ=255)
                                                                              cAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCaa                                                                                                                               >  7:169587/1‑79 (MQ=255)
                                                                                   ccgccAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTc                                                    <  5:231230/149‑1 (MQ=255)
                                                                                      ccAAAGGATATGGCGGGGTCAATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGc                                                 >  8:249215/1‑149 (MQ=255)
                                                                                         aaGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGa                                              <  7:238320/149‑1 (MQ=255)
                                                                                          aGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCg                                                   >  5:166319/1‑143 (MQ=255)
                                                                                          aGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCg                                                   <  6:166319/143‑1 (MQ=255)
                                                                                            gATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTTCATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGata                                            >  8:19037/1‑148 (MQ=255)
                                                                                            gATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTTCATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGata                                            >  8:14306/1‑148 (MQ=255)
                                                                                            gATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCCGCGAATGGCTGGTGTACAGCTCGGCCGata                                            >  1:153412/1‑148 (MQ=255)
                                                                                                 ggCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGa                                              >  7:7761/1‑141 (MQ=255)
                                                                                                 ggCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGa                                              <  8:7761/141‑1 (MQ=255)
                                                                                                 ggCGGGGTCAATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCg                                       <  7:249215/148‑1 (MQ=255)
                                                                                                       gTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCt                                >  5:30104/1‑149 (MQ=255)
                                                                                                               aGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACgg                                                                              >  6:54878/1‑95 (MQ=255)
                                                                                                               aGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACgg                                                                              <  5:54878/95‑1 (MQ=255)
                                                                                                               aGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATc                        >  8:37455/1‑149 (MQ=255)
                                                                                                                gcgcATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGcc                                                >  7:178377/1‑124 (MQ=255)
                                                                                                                gcgcATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGcc                                                <  8:178377/124‑1 (MQ=255)
                                                                                                                        cAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGcaa                >  8:28680/1‑148 (MQ=255)
                                                                                                                            cTTGATGTCTTTCCAGCCTTCATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGc           <  7:14306/149‑1 (MQ=255)
                                                                                                                            cTTGATGTCTTTCCAGCCTTCATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGc           <  7:19037/149‑1 (MQ=255)
                                                                                                                             ttGATGTCTTTCCAGCCTACATATGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGACCAAGAGGCGAAGCCACGGCCCAGCGAAAGGCTGGTGTACACCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCt          >  3:126369/1‑149 (MQ=255)
                                                                                                                                aTGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCTGAt       >  5:129582/1‑149 (MQ=255)
                                                                                                                                  gTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCTGAt       >  6:143544/1‑147 (MQ=255)
                                                                                                                                   tCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGAGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGCTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGAGCAACAAGCTGATCAg    >  8:143944/1‑149 (MQ=255)
                                                                                                                                     tttCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCTGATCAGGc  >  2:190054/1‑149 (MQ=255)
                                                                                                                                       tCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCTGATCAgg   <  5:143544/146‑1 (MQ=255)
                                                                                                                                               |                                                                                                                                          
CTGGGGTGTGCCGATATTAATGAGAAGCTGAAAGTTGACCCAAAGGGCCAGCATGAAGCTCAAGGACAGGTTTAGCTGCAAGGCCGCCAAAGGATATGGCGGGGTCGATGTAGCGCATGGCAGACTTGATGTCTTTCCAGCCTACATAGGTCATCAAGGCCTTGAGATCCCAGCCATTTGCCGTGGCCCAAGAGGCGAAGCCACGGCGCAGCGAATGGCTGGTGTACAGCTCGGCCGATATACCGGCGCGCTGTAGGATCTGGCGCAACAAGCTGATCAGGC  >  NC_002947/3379161‑3379442

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑