Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,240,102 A→C 7.3% I63S (ATC→AGC)  PP_3717 ← LuxR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,240,1020AC 7.3% 163.6 / 4.8 55I63S (ATC→AGC) PP_3717LuxR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (28/23);  new base C (2/2);  total (30/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.72e-01

GGTCCAGCAGGTAGCCGGCGCTGAAATAGCGCTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCT  >  NC_002947/4239956‑4240249
                                                                                                                                                   |                                                                                                                                                   
ggTCCAGCAGGTAGCCGGCGCTGAAATAGCGCTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATg                                                                                                                                                   >  5:23551/1‑149 (MQ=255)
    cagcagGTAGCCGGCGCTGAAATAGCGCTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCa                                                                                                                                                <  3:66314/148‑1 (MQ=255)
             gCCGGCGCTGAAATAGCGCTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCcaca                                                                                                                                       <  6:136938/148‑1 (MQ=255)
                         aTAGCGCTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGACTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCt                                                                                                                          >  4:245090/1‑149 (MQ=255)
                            gcgcTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCgg                                                                                                                       <  3:245090/149‑1 (MQ=255)
                            gcgcTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCg                                                                                                                        <  6:23551/148‑1 (MQ=255)
                                   aGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCCTCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACGTACTCCAGCGCCTCGGGGGTTTc                                                                                                                <  5:171244/149‑1 (MQ=255)
                                    gCACCGCGGCCCGAGCCCGTTCGGGGATGCCTGGCCGGAACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCCGACCATCCTCGACTCCACCT‑GCACCAACTGCCCGATCGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCa                                                                                                               <  2:104872/149‑1 (MQ=255)
                                          cgGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATgg                                                                                                         >  1:224407/1‑149 (MQ=255)
                                               cGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACAt                                                                                                                                      <  5:293263/115‑1 (MQ=255)
                                               cGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACAt                                                                                                                                      >  6:293263/1‑115 (MQ=255)
                                                       ttCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGCTGCCATCGGCcagt                                                                                                                                       >  1:146480/1‑104 (MQ=255)
                                                       ttCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGCTGCCATCGGCcagt                                                                                                                                       <  2:146480/106‑3 (MQ=255)
                                                          ggggATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCATCATGGGCCAGGGCGCGCTGc                                                                                          <  6:352677/148‑1 (MQ=255)
                                                           gggATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCaa                                                                                        >  7:182152/1‑149 (MQ=255)
                                                            ggATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAAc                                                                                       <  2:224407/149‑1 (MQ=255)
                                                                  cTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACg                                                                                 >  2:35738/1‑149 (MQ=255)
                                                                    tGCTGGTAAAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTg                                                                               >  6:180117/1‑149 (MQ=255)
                                                                         gTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCAct                                                                          >  4:66689/1‑149 (MQ=255)
                                                                            cAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGCTGCCatc                                                                                                                                              >  2:264263/1‑76 (MQ=255)
                                                                            cAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGCTGCCatc                                                                                                                                              <  1:264263/78‑3 (MQ=255)
                                                                               cAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAg                                                                                                    >  6:134967/1‑117 (MQ=255)
                                                                               cAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAg                                                                                                    <  5:134967/117‑1 (MQ=255)
                                                                                     cggcgCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCTGGCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAgcgcg                                                               >  1:267213/1‑149 (MQ=255)
                                                                                         gcccgcccCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCAt                                                          >  1:141422/1‑149 (MQ=255)
                                                                                               cccTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCCACGCCACGt                                                                                >  7:304849/1‑121 (MQ=255)
                                                                                                    gCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGt                                                 <  6:163663/147‑1 (MQ=255)
                                                                                                    gCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGt                                                 >  5:163663/1‑147 (MQ=255)
                                                                                                          aaGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCgggg                                         >  5:67615/1‑149 (MQ=255)
                                                                                                          aaGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCgg                                           <  3:66689/147‑1 (MQ=255)
                                                                                                           aGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCgggg                                         >  5:267792/1‑148 (MQ=255)
                                                                                                                  tgatcatcGACTCCAGCT‑GCACCAACTGGCGTATGGCTGCGGCCTCATACTCCAGCTCCTCGGGGGTTTCACCATGGGCGAGGTCGCGGTGCAACGCCTCGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGga                                 <  5:201149/147‑1 (MQ=255)
                                                                                                                   catcatcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCgg                                   >  5:123640/1‑146 (MQ=255)
                                                                                                                   catcatcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCgg                                   >  4:212913/1‑146 (MQ=255)
                                                                                                                    atcatcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGga                                 >  6:65710/1‑147 (MQ=255)
                                                                                                                     tcatcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGagag                              <  6:267792/149‑1 (MQ=255)
                                                                                                                       atcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGt                                                                                <  1:46306/97‑1 (MQ=255)
                                                                                                                       atcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGt                                                                                >  2:46306/1‑97 (MQ=255)
                                                                                                                       atcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGc                            >  6:243617/1‑149 (MQ=255)
                                                                                                                        tcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGTTATCGGGAGAGGcc                           <  5:180117/149‑1 (MQ=255)
                                                                                                                        tcGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGcc                           >  7:102748/1‑149 (MQ=255)
                                                                                                                              ccACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGTCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGt                      >  1:256995/1‑148 (MQ=255)
                                                                                                                              ccACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGt                      >  7:151076/1‑148 (MQ=255)
                                                                                                                                aCCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCgg                                           >  4:146667/1‑125 (MQ=255)
                                                                                                                                aCCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCgg                                           <  3:146667/125‑1 (MQ=255)
                                                                                                                                  cT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCCCTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGc                 >  6:54386/1‑149 (MQ=255)
                                                                                                                                           aCTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGt         <  8:151076/149‑1 (MQ=255)
                                                                                                                                           aCTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGt         <  2:56017/149‑1 (MQ=255)
                                                                                                                                           aCTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGt         >  1:56017/1‑149 (MQ=255)
                                                                                                                                             tGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCAtt                                                         >  6:202596/1‑99 (MQ=255)
                                                                                                                                             tGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCAtt                                                         <  5:202596/99‑1 (MQ=255)
                                                                                                                                                ccGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGc    <  8:182152/149‑1 (MQ=255)
                                                                                                                                                 cGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGa                                                     <  4:351159/99‑1 (MQ=255)
                                                                                                                                                 cGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGcc   >  5:160440/1‑149 (MQ=255)
                                                                                                                                                  gATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCt  <  3:212913/149‑1 (MQ=255)
                                                                                                                                                   aTGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACTCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATTCCCGGCAg          <  5:211785/140‑1 (MQ=255)
                                                                                                                                                   aTGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACCCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAg          >  6:211785/1‑140 (MQ=255)
                                                                                                                                                   |                                                                                                                                                   
GGTCCAGCAGGTAGCCGGCGCTGAAATAGCGCTCCAGCACCGCGGCCCGATGCCGTTCGGGGATGCCTTGCTGGTACAGCAACTGCGGCGCCCGCCCCTGGCACTCAAGGCTGATCATCATCGACTCCACCT‑GCACCAACTGGCCGATGGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCT  >  NC_002947/4239956‑4240249

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: ‑