Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,914,241 C→G 9.3% A203G (GCC→GGC)  pcaQ → transcriptional regulator PcaQ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,914,2410CG 9.3% 126.4 / 4.6 43A203G (GCC→GGC) pcaQtranscriptional regulator PcaQ
Reads supporting (aligned to +/- strand):  ref base C (18/21);  new base G (2/2);  total (20/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.88e-01

CCGACAGCCCACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCTGTGGGTGGCGCCGCGTGATGC  >  NC_002947/1914094‑1914388
                                                                                                                                                   |                                                                                                                                                   
ccGACAGCCCACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCgccggcc                                                                                                                                                    <  1:228133/149‑1 (MQ=255)
ccGACAGCCCACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCgccggcc                                                                                                                                                    >  3:69777/1‑149 (MQ=255)
   aCAGCCCACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCcggccggc                                                                                                                                                 <  6:100192/149‑1 (MQ=255)
       cccACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGTCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGcacca                                                                                                                                             >  1:185873/1‑149 (MQ=255)
       cccACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGcacca                                                                                                                                             >  5:128507/1‑149 (MQ=255)
          acaGATCCAGGGCCTGTCGTTCGAGCACCTGTACCGCGAGTCGATGCGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCACCACGCCCGTGGAGCTAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCAccacca                                                                                                                                          <  7:223215/149‑1 (MQ=255)
               tCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGt                                                                                                                                     <  4:69777/149‑1 (MQ=255)
                            gTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGa                                                                                                                          >  6:115042/1‑147 (MQ=255)
                            gTTCGAGCAACTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACa                                                                                                                        >  2:241617/1‑149 (MQ=255)
                               cGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGc                                                                                                                      <  1:241617/148‑1 (MQ=255)
                                         tACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGTCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGc                                                                                                            <  2:185873/148‑1 (MQ=255)
                                           caccGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTtgt                                                                                                              <  2:44993/141‑1 (MQ=255)
                                           cAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTtgt                                                                                                              >  1:44993/1‑144 (MQ=255)
                                           cAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCaa                                                                                                          <  4:96083/148‑1 (MQ=255)
                                           cAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAAt                                                                                                         >  8:104585/1‑149 (MQ=255)
                                               gAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCg                                                                                                      <  7:53595/148‑1 (MQ=255)
                                                aGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCgg                                                                                                     >  1:246081/1‑148 (MQ=255)
                                                   cGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATc                                                                                                 <  6:105136/149‑1 (MQ=255)
                                                     aTGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATcc                                                                                                                                       <  1:145648/109‑1 (MQ=255)
                                                     aTGAGCCTGGTGGTGCGCCCGGGTCACCCGCAGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTCGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATcc                                                                                                                                       >  2:145648/1‑109 (MQ=255)
                                                           cTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGTGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGcc                                                                                         <  6:128507/149‑1 (MQ=255)
                                                              gtggtgCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCgg                                                                                       <  5:276455/148‑1 (MQ=255)
                                                                 gtgCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGAGAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGCTGCCGGcc                                                                                     >  7:105990/1‑147 (MQ=255)
                                                                 gtgCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCa                                                                                   <  2:246081/149‑1 (MQ=255)
                                                                              aCCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAAcc                                                                      <  5:115042/149‑1 (MQ=255)
                                                                                    tgctgGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCg                                                                >  6:135934/1‑149 (MQ=255)
                                                                                         gCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTgg                                                            <  7:104585/148‑1 (MQ=255)
                                                                                          ccAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGcc                                                          <  5:135934/149‑1 (MQ=255)
                                                                                           cAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGccc                                                         >  7:201860/1‑149 (MQ=255)
                                                                                           cAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCATCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCgg                                                                                       <  4:66004/119‑1 (MQ=255)
                                                                                           cAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCATCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCgg                                                                                       >  3:66004/1‑119 (MQ=255)
                                                                                            aGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCt                                                        >  3:90570/1‑149 (MQ=255)
                                                                                                    cGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGgc                                                <  4:90570/149‑1 (MQ=255)
                                                                                                            gAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCATGGAAACCCTGTCGCTGGcc                                                          >  5:252021/1‑131 (MQ=255)
                                                                                                            gAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCATGGAAACCCTGTCGCTGGcc                                                          <  6:252021/131‑1 (MQ=255)
                                                                                                                    gTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATACGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCATGTCGCTGGCCCTGAGCCGGCGCTACCAGCTGGGTAg                                >  6:229833/1‑149 (MQ=255)
                                                                                                                                ccGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGc                                                    <  8:169635/117‑1 (MQ=255)
                                                                                                                                ccGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCtgtg                    <  8:201860/149‑1 (MQ=255)
                                                                                                                                ccGCTTGTGCTGCCGCCGGCCGCCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGc                                                    >  7:169635/1‑117 (MQ=255)
                                                                                                                                  gCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATg                           >  2:237570/1‑140 (MQ=255)
                                                                                                                                  gCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATg                           <  1:237570/140‑1 (MQ=255)
                                                                                                                                   atggtggtgCCGGCCGGCGGCAGCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAg                                <  4:72607/131‑1 (MQ=255)
                                                                                                                                   atggtggtgCCGGCCGGCGGCAGCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAg                                >  3:72607/4‑134 (MQ=255)
                                                                                                                                     ggtggtgCCGGCCGGCGGCAGCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCt                                                                    >  6:129775/2‑96 (MQ=255)
                                                                                                                                     ggtggtgCCGGCCGGCGGCAGCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCt                                                                    <  5:129775/95‑1 (MQ=255)
                                                                                                                                      gtgCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCTGTGGGTGgc              >  4:166517/1‑149 (MQ=255)
                                                                                                                                              gccggccgGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCTGTGGGTGGCGCCGCGt       >  6:275569/1‑148 (MQ=255)
                                                                                                                                              gccggccgGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCTGTGGGTGGCGCCGCGt       >  1:158413/1‑148 (MQ=255)
                                                                                                                                               ccggccggCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGATACCTGCTGGGTAGCGATGGCCTGTGGGTGGCGCCGCGTGa     >  6:3200/1‑149 (MQ=255)
                                                                                                                                                  gccggcACCACCATCCGTCAGCATGCCGACAGCCTGATTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCTGTGGGTGGCGCCGCGTGATGc  >  5:254161/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                   
CCGACAGCCCACAGATCCAGGGCCTGTCGTTCGAGCACCTGTACAGCGAGTCGATGAGCCTGGTGGTGCGCCCGGGTCACCCGCTGCTGGCCAGCACGCCCGTGGAGCGAGGACAGGTGGGGCGTTACCCGCTTGTGCTGCCGCCGGCCGGCACCACCATCCGTCAGCATGCCGACAGCCTGTTTGTGCAATGCGGCATCCAGATGCCGGCCCAGCGCCTGGAAACCCTGTCGCTGGCCCTGAGCCGGCGCTACCTGCTGGGTAGCGATGGCCTGTGGGTGGCGCCGCGTGATGC  >  NC_002947/1914094‑1914388

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: ‑