Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,392,673 A→G 7.8% intergenic (+447/‑47) alsT → / → glcT AGCS family alanine or glycine:sodium (Na+) symporter/transcriptional antiterminator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,392,6730AG 7.8% 135.4 / 4.9 52intergenic (+447/‑47)alsT/glcTAGCS family alanine or glycine:sodium (Na+) symporter/transcriptional antiterminator
Reads supporting (aligned to +/- strand):  ref base A (24/22);  new base G (2/2);  total (28/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.86e-01

AGAATTATTTGTAAATATGGGAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTATTTTAATCGG  >  CP000730/1392537‑1392808
                                                                                                                                        |                                                                                                                                       
aGAATTATTTGTAAATATGGGAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGtt                                                                                                                                     >  2:369305/1‑141 (MQ=255)
    ttataTGTAAATATGGGAGTCAAATTTTTTTATTATATTTATTGCACTATGAGAGACATCGAAATTCGATTAAGATATATCATATAGGATAGGCGAGTAATAGAACACAAGTATTTAAATTTTTATACTTTCCAATTacac                                                                                                                                 >  2:506623/1‑141 (MQ=255)
     tattTGTAAATATGGGAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACa                                                                                                                                <  2:465915/141‑1 (MQ=255)
      attTGTAAATATGGGAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATACGATAGGCGTGTAATAGAACACAAGTATTTAAATTATAATACGTTCAAATTAGACAt                                                                                                                               >  2:114108/1‑141 (MQ=255)
      attTGTAAATATGGAAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTTAAGTTAGACAt                                                                                                                               >  1:306419/1‑141 (MQ=255)
       tttGTAAATATGGGAGTCAGATTTTTTTATTATAGTTATTACACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATGTAAATTATTATACTTTCAAGTTAGACAtt                                                                                                                              >  2:85182/1‑141 (MQ=255)
              atatGGGAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGCTTTATCATATAGGACAGGCGTTTAAGAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGata                                                                                                                       <  1:274410/141‑1 (MQ=255)
                aggggAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGTCTTTTACGacata                                                                                                                     <  2:493463/139‑1 (MQ=255)
                       tCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTTTACTTTCAAGTTAGACATTTCCGATATATAATCtt                                                                                                              >  2:459662/1‑141 (MQ=255)
                               ttttATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCCAGTTAGACATTTCCGATATATAATCTTAATAATAg                                                                                                      >  1:6737/1‑141 (MQ=255)
                                tttATTATTTTTTTTCCTCTTTGAGATACATCTTAGTTAAATTTTGATATTTCATTTATGATAGGCGTGTAATAGAACTCTAGTATTTTAATTATTATACTTTCAAGTTTGTCATTTCCTATATATAATCTTAATAATAGa                                                                                                     <  2:413035/141‑1 (MQ=255)
                                tttATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGa                                                                                                     >  2:253757/1‑141 (MQ=255)
                                        aGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAgg                                                                                             >  2:133888/1‑141 (MQ=255)
                                            aTTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGtgat                                                                                         <  2:408404/141‑1 (MQ=255)
                                                   tttGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCGAGTTAGACATTTCCGATATATAATTTTAATAATAGAAAAATAGGTGATGATAATg                                                                                  >  2:17945/1‑141 (MQ=255)
                                                   tttGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCGAGTTAGACATTTCCGATATATAATTTTAATAATAGAAAAATAGGTGATGATAATg                                                                                  >  2:18017/1‑141 (MQ=255)
                                                       agagaCATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGgag                                                                              <  2:486113/141‑1 (MQ=255)
                                                       agagaCATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGgag                                                                              <  2:486089/141‑1 (MQ=255)
                                                         agaCATCGAAATTAAATTAAGATATATCATCAAGCATTGCCCGATAATAGAAAACGCGAATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGaa                                                                            >  1:562549/1‑141 (MQ=255)
                                                                     taaattaaGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGGCATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACt                                                                <  1:443226/141‑1 (MQ=255)
                                                                      aaattaaGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTa                                                               >  1:487388/1‑141 (MQ=255)
                                                                      aaattaaGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTa                                                               >  2:190434/1‑141 (MQ=255)
                                                                       aatgaaGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTaa                                                              <  1:327255/141‑1 (MQ=255)
                                                                              atatatCATATAGGATAAGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTg                                                       <  1:310937/141‑1 (MQ=255)
                                                                                 tatCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGaac                                                    <  1:529370/141‑1 (MQ=255)
                                                                                 tatCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGaac                                                    >  1:253124/1‑141 (MQ=255)
                                                                                 tatCAGATAGGATATGAGTATAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGaac                                                    <  1:4373/141‑1 (MQ=255)
                                                                                           gttaagtgtgcAATAGAACACAAGTATTTAAATTAAGATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGTGAATATATTGTTACTAAAACATTGAACAACAATGTCg                                          <  1:152674/134‑1 (MQ=255)
                                                                                             taggCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAAAAATGTCgta                                        >  1:124856/1‑141 (MQ=255)
                                                                                               ggCGTGTAATAGAACACAAGTGTTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCgtagt                                      >  1:294956/1‑141 (MQ=255)
                                                                                               ggCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCgtagt                                      >  1:308667/1‑141 (MQ=255)
                                                                                                gCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCgtagta                                     >  2:423308/1‑141 (MQ=255)
                                                                                                 agtgtAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTAt                                    <  1:123340/140‑1 (MQ=255)
                                                                                                   tgtAATAGAACACAAGTATTTAAATTATTATACTTTCGAGTTAGACATTTCCGATATATAATTTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGt                                  <  1:17945/141‑1 (MQ=255)
                                                                                                   tgtAATAGAACACAAGTATTTAAATTATTATACTTTCGAGTTAGACATTTCCGATATATAATTTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGt                                  <  1:18017/141‑1 (MQ=255)
                                                                                                   tgtAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCGGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTAAGt                                  >  2:150082/1‑141 (MQ=255)
                                                                                                    ttAATAGAACACAACCAATCAAAACACTAGACTATCAAGATAAACATTTCCGATATATAATCTTAAAAATAGAAAAATAGGTAATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTa                                 <  2:302441/140‑1 (MQ=255)
                                                                                                    gtAATAGAACACAAGTATTTAAATTATGATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTa                                 <  1:543203/141‑1 (MQ=255)
                                                                                                      aaTAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACt                               <  2:253124/141‑1 (MQ=255)
                                                                                                      aaTAGAACACAAGAATTTAAATTATTATACTTTCAAGTTAGACATTGCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACt                               <  1:465469/141‑1 (MQ=255)
                                                                                                          gAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTGCTAAAACATTGAACAACAATGTCGTAGTATGTACtaata                           >  1:386428/1‑141 (MQ=255)
                                                                                                          gAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAAGGTCGTAGTATGTACtaata                           >  1:398336/1‑141 (MQ=255)
                                                                                                                aaGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACATAGTCGTGGTACGTACTAATAATGAtg                     >  1:97172/1‑140 (MQ=255)
                                                                                                                  gTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTATTAATTATGATCaa                   >  2:325328/1‑141 (MQ=255)
                                                                                                                  gTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTAGTAGTAGGTACTAATAATGATCaa                   >  2:231751/1‑141 (MQ=255)
                                                                                                                             attttACGTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTAtttt        <  2:151524/141‑1 (MQ=255)
                                                                                                                             attatATCTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTAtttt        <  2:406544/141‑1 (MQ=255)
                                                                                                                             attatACCTTCAAGGTAGACATTTCCGATATATAATCTTAATAATAGAATAATAGGTGATGAGAATGGGAGAATATATTGTTACTAAAACATGGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTCAtttt        <  1:506623/141‑1 (MQ=255)
                                                                                                                               tataCTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATTATGGGAGAATATATTGTTACTAAAGCATTGAACAACAATGTCGTAGTATGGACTAATAGTGATCAAGAAGTTATTTTaa      <  1:369305/141‑1 (MQ=255)
                                                                                                                                 taCTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTATTTTAATc    >  1:430315/1‑141 (MQ=255)
                                                                                                                                   cTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTATTTTAATCgg  >  1:327568/1‑141 (MQ=255)
                                                                                                                                   cTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTATTTTAATCgg  >  2:493882/1‑141 (MQ=255)
                                                                                                                                        |                                                                                                                                       
AGAATTATTTGTAAATATGGGAGTCAGATTTTTTTATTATAGTTATTCCACTTTGAGAGACATCGAAATTAAATTAAGATATATCATATAGGATAGGCGTGTAATAGAACACAAGTATTTAAATTATTATACTTTCAAGTTAGACATTTCCGATATATAATCTTAATAATAGAAAAATAGGTGATGATAATGGGAGAATATATTGTTACTAAAACATTGAACAACAATGTCGTAGTATGTACTAATAATGATCAAGAAGTTATTTTAATCGG  >  CP000730/1392537‑1392808

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑