Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 635,444 C→T 7.7% P584S (CCC→TCC)  PP_0546 → sigma‑54 dependent transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947635,4440CT 7.7% 151.6 / 2.4 52P584S (CCC→TCC) PP_0546sigma‑54 dependent transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (23/25);  new base T (2/2);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.54e-01

TGCTCGCATTTAACTGGCCAGGGAACGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAGGTTCTGCTCGACGCGGAGCGGCAA  >  NC_002947/635298‑635587
                                                                                                                                                  |                                                                                                                                               
tgctCGCATTTAACTGGCCAGGGAACGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGccc                                                                                                                                               >  2:198364/1‑149 (MQ=255)
   tCGCATTTAACTGGCCAGGGAACGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCcgc                                                                                                                                             >  5:93704/1‑148 (MQ=255)
             cTGGCCAGGGAACGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTcc                                                                                                                                   >  1:247391/1‑148 (MQ=255)
                      gAACGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGaaa                                                                                                                         >  4:116881/1‑149 (MQ=255)
                        aCGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATg                                                                                                                       <  6:93704/149‑1 (MQ=255)
                           tGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGgag                                                                                                                    <  1:198364/149‑1 (MQ=255)
                             cGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCTACCAGGAAATGgagg                                                                                                                   <  5:80361/148‑1 (MQ=255)
                              ggCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGgagggc                                                                                                                 <  7:37301/149‑1 (MQ=255)
                               gCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGgagggc                                                                                                                 >  8:230277/1‑148 (MQ=255)
                                          aTGTGCTGCGTAAACTGGTGGCGCTTAGCGAAGATGCCCGCATTACCTTTGCGGAACTCCCCGCAGTCATCCGCACCAGCCCACATCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGcc                                                                                                     >  5:99240/1‑149 (MQ=255)
                                                  cGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGc                                                                                                      >  1:36160/1‑140 (MQ=255)
                                                  cGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGc                                                                                                      <  2:36160/140‑1 (MQ=255)
                                                  cGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGtttg                                                                                             <  2:247391/149‑3 (MQ=255)
                                                  cGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCAACGCCCTCgcc                                                                                               <  8:17008/147‑3 (MQ=255)
                                                      cccTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCggg                                                                                         >  7:200810/1‑149 (MQ=255)
                                                       ccTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCggg                                                                                         >  7:180005/1‑148 (MQ=255)
                                                       ccTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGc                                                                                        <  6:99240/149‑1 (MQ=255)
                                                             ggCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGccc                                                                                  >  5:261956/1‑149 (MQ=255)
                                                               cgcTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGc                                                                                <  3:54883/149‑1 (MQ=255)
                                                                      cGAAGATGCCCGCATTACCTTTGCGGACCTCCCCTCAGTCATCCGCACCATCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGATGTCGAGGGCGTTGCCCTCGTTCGCGGGAAAGccc                                                                                  <  6:105115/140‑1 (MQ=255)
                                                                      cGAAGATGCCCGCATTACCTTTGCGGACCTCCAAGCAGTCATCCGCACAAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGAACAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCgagatagg                                                                          >  5:105115/1‑141 (MQ=255)
                                                                        aaGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGaa                                                                                                                                          >  7:32407/1‑82 (MQ=255)
                                                                        aaGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGaa                                                                                                                                          <  8:32407/82‑1 (MQ=255)
                                                                               ccGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCcggcg                                                                >  7:111220/1‑149 (MQ=255)
                                                                               ccGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCcggcg                                                                >  7:159025/1‑149 (MQ=255)
                                                                               ccGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCcggcg                                                                >  3:116236/1‑149 (MQ=255)
                                                                                 gCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGc                                                                                                                                                 >  6:25706/1‑66 (MQ=255)
                                                                                 gCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGc                                                                                                                                                 <  5:25706/66‑1 (MQ=255)
                                                                                  cATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTg                                                             >  3:185087/1‑149 (MQ=255)
                                                                                     tACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCg                                                          >  2:129267/1‑149 (MQ=255)
                                                                                               gACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGa                                                <  3:236882/149‑1 (MQ=255)
                                                                                               gACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGa                                                <  4:97865/149‑1 (MQ=255)
                                                                                                aCCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCcgg                                                                  >  7:102738/1‑130 (MQ=255)
                                                                                                aCCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCcgg                                                                  <  8:102738/130‑1 (MQ=255)
                                                                                                aCCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAg                                               <  1:129267/149‑1 (MQ=255)
                                                                                                aCCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAg                                               <  7:230277/149‑1 (MQ=255)
                                                                                                aCCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAg                                               <  4:123481/149‑1 (MQ=255)
                                                                                                   tCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGt                                            >  1:186465/1‑149 (MQ=255)
                                                                                                                   cACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGACGGTGCATCTGCAGGGAcc                             >  5:77344/1‑148 (MQ=255)
                                                                                                                      cAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAgg                         <  2:186465/149‑1 (MQ=255)
                                                                                                                           cACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCgg                                                                                          <  2:18412/79‑1 (MQ=255)
                                                                                                                           cACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCgg                                                                                          >  1:18412/1‑79 (MQ=255)
                                                                                                                           cACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAGGTTCTg                    <  4:185087/149‑1 (MQ=255)
                                                                                                                              ctctCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAgg                         <  6:170055/141‑1 (MQ=255)
                                                                                                                              ctctCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAgg                         >  5:170055/1‑141 (MQ=255)
                                                                                                                               tctcGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAGGTTCTGCTc                 >  1:170305/1‑148 (MQ=255)
                                                                                                                                ctcGCGGGGGTAGGCGAGTCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGa                           <  5:263394/137‑1 (MQ=255)
                                                                                                                                ctcGCGGGGGTAGGCGAGTCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGa                           >  6:263394/1‑137 (MQ=255)
                                                                                                                                ctcGCGGGGGTAGGCGAGTCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGa                           >  6:196765/1‑137 (MQ=255)
                                                                                                                                ctcGCGGGGGTAGGCGAGTCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGa                           <  5:196765/137‑1 (MQ=255)
                                                                                                                                   gcgGGGGTAGGCGAGCCAGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGAGTGAGGGTGAATCTGCAGGGACCGAGGTTCTGCTCGa               <  8:180005/146‑1 (MQ=255)
                                                                                                                                        ggTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAGGTTCTGCTCGACGCGGAGc       <  6:261956/149‑1 (MQ=255)
                                                                                                                                           aGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAgg                                              >  3:258381/1‑107 (MQ=255)
                                                                                                                                           aGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAgg                                              <  4:258381/107‑1 (MQ=255)
                                                                                                                                             gCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAGGTTCTGCTCGACGCGGAGCGGCaa  <  4:116236/149‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                               
TGCTCGCATTTAACTGGCCAGGGAACGTGCGGCAGATGCGCAATGTGCTGCGTACCCTGGTGGCGCTTTGCGAAGATGCCCGCATTACCTTTGCGGACCTCCCCGCAGTCATCCGCACCAGCCCACCTCTCGCGGGGGTAGGCGAGCCCGCGAAGATGTCCGACCAGGAAATGGAGGGCGAGGGCGTTGCCCTCGTTCGCGGGCAAGCCCGCTCCCACAGGTCCGGCGGTGCCGCAGAGATTGAGGGTGAATCTGCAGGGACCGAGGTTCTGCTCGACGCGGAGCGGCAA  >  NC_002947/635298‑635587

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: ‑