Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 6,080,989 T→A 15.2% intergenic (+36/+26) PP_5332 → / ← PP_5333 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029476,080,9890TA15.2% 116.3 / 13.0 52intergenic (+36/+26)PP_5332/PP_5333hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (23/20);  new base A (4/4);  total (27/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.77e-01

GCAGCGAATGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCGGG  >  NC_002947/6080845‑6081129
                                                                                                                                                |                                                                                                                                            
gCAGCGAATGCTGTGCATCGAGACAGCGAATGTGTGGGATGACGTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGcc                                                                                                                                           <  3:135886/148‑1 (MQ=255)
     gAATGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTGGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCAAGCCCGCGaa                                                                                                                                     <  8:212609/149‑1 (MQ=255)
      aaTGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCAAGCCCGCGAag                                                                                                                                    <  6:122935/149‑1 (MQ=255)
          cTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCCGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCAAGCCCGCGAAGAGGc                                                                                                                                <  7:186160/149‑1 (MQ=255)
                        aGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGTTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCg                                                                                                                              <  8:62579/137‑1 (MQ=255)
                        aGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCg                                                                                                                              >  7:62579/1‑137 (MQ=255)
                          cGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCaaa                                                                                                                <  4:100027/149‑1 (MQ=255)
                                 gtgGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGc                                                                                                         <  3:106744/149‑1 (MQ=255)
                                  tgGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCCCGGGCTTGCCCGCGAACAGGCCGGGGCAATTATAAAAGGTCTGCg                                                                                                        >  4:254785/1‑149 (MQ=255)
                                          catggtggAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCATATCGGTTGTCAAAATATCTGAGCCCTGCTCTTTTTTAACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGGCTTccac                                                                                                <  1:207157/147‑1 (MQ=255)
                                           cTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTTCCCGCGAAGAGGCCGGGGGAATTATCAAAGGTCTGCGTCTTcgac                                                                                                >  3:18679/1‑148 (MQ=255)
                                              gtggAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAaga                                                                                                                                   <  4:160181/110‑1 (MQ=255)
                                              gtggAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAaga                                                                                                                                   >  3:160181/1‑110 (MQ=255)
                                                         gCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTc                                                                                 >  2:141505/1‑149 (MQ=255)
                                                            tGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTg                                                                               >  1:104110/1‑148 (MQ=255)
                                                                      cATTCGCTGGGCGTCAAGTTGGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCTAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAgcgc                                                                     <  2:104110/148‑1 (MQ=255)
                                                                        ttCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCa                                                                    >  4:115700/1‑147 (MQ=255)
                                                                                     cAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTAGCGGGCTTTCCCGCGAAGAATCCGGGGCAATTATAAAAAGTCAGAGTATTACAACACCCACACCTTGTATGAAAACAGCGCAAAGGCCGCATCCGc                                                      >  8:218311/1‑148 (MQ=255)
                                                                                       gATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATGCAGCGCATAGGCCGCATCGGCCAg                                                   >  5:172266/1‑149 (MQ=255)
                                                                                        aTCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAgg                                                  >  2:240020/1‑149 (MQ=255)
                                                                                         tCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAgg                                                  <  3:115700/148‑1 (MQ=255)
                                                                                          cGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGt                                                 >  2:216517/1‑148 (MQ=255)
                                                                                            gTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCAt                                              >  8:43462/1‑149 (MQ=255)
                                                                                                  aaaaTATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGa                                        >  5:268827/1‑149 (MQ=255)
                                                                                                   aaaTATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGAGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGAGACTTCCACAACACTCACCTTGTCTGCATCAAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGAc                                       >  1:221336/1‑149 (MQ=255)
                                                                                                              cccTGCTCTTTTTTTACGGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCt                            <  3:254785/149‑1 (MQ=255)
                                                                                                               ccTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCtt                           >  7:211682/1‑149 (MQ=255)
                                                                                                               ccTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCtt                           <  1:216517/149‑1 (MQ=255)
                                                                                                                cTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCtt                           >  3:243119/1‑148 (MQ=255)
                                                                                                                   atctTTTTTTACCGGCCTCTTCCCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCa                         <  4:18679/146‑1 (MQ=255)
                                                                                                                      tttttttACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGAc                                       >  4:17994/1‑130 (MQ=255)
                                                                                                                      tttttttACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGAc                                       <  3:17994/130‑1 (MQ=255)
                                                                                                                         ttttACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCg                 >  2:53091/1‑149 (MQ=255)
                                                                                                                          tttACCGGCCTCTTCGCGGGCTGGCCCGCTAAGTGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCg                 <  6:172266/148‑1 (MQ=255)
                                                                                                                              ccGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGa             <  7:43462/148‑1 (MQ=255)
                                                                                                                              ccGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGa             <  6:268827/148‑1 (MQ=255)
                                                                                                                                ggCCTATTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGAccc          <  7:218311/149‑1 (MQ=255)
                                                                                                                                   ctctTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCcaca       <  1:240020/149‑1 (MQ=255)
                                                                                                                                    tctTCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTTTCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGt                                                 >  3:32487/1‑106 (MQ=255)
                                                                                                                                    tctTCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGt                                                 <  4:32487/106‑1 (MQ=255)
                                                                                                                                     ctTCGCTGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGAc                                       <  6:132154/115‑1 (MQ=255)
                                                                                                                                     ctTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGAc                                       >  5:132154/1‑115 (MQ=255)
                                                                                                                                      ttCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCg    >  3:234006/1‑149 (MQ=255)
                                                                                                                                      ttCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTATGCGTCTTCCCCCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGACTCGGCCATGTCATTGCTGAACTTCTCCACCTTCAGCTTGCCGCTGACCCACAgag    >  2:48965/1‑147 (MQ=255)
                                                                                                                                      ttCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCg    >  5:276045/1‑149 (MQ=255)
                                                                                                                                       tCGCGGGCTTGCCGGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGc                                                               <  5:78201/89‑1 (MQ=255)
                                                                                                                                       tCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGc                                                               >  6:78201/1‑89 (MQ=255)
                                                                                                                                       tCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCgg   >  7:66477/1‑149 (MQ=255)
                                                                                                                                       tCGCGGGCAAGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCgg   >  3:95773/1‑149 (MQ=255)
                                                                                                                                        cgcgGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCggg  >  4:172015/1‑149 (MQ=255)
                                                                                                                                         gcgGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCggg  <  2:221336/148‑1 (MQ=255)
                                                                                                                                         gcgGGCGTGCCCGCGAAGAGGCCGGGGCAATTATCAAATGTCTGCGTCTTCAACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCAGCGGCCAGGGCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCggg  <  1:48965/148‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                            
GCAGCGAATGCTGTGCATCGAGACAGCGAATGTGTGGGATGACCTGGTGGAGTTGAAGCCTGGGGCGAGTCATTCGCTGGGCGTCCAGATCGGTTGTGAAAATATCTGAGCCCTGCTCTTTTTTTACCGGCCTCTTCGCGGGCTTGCCCGCGAAGAGGCCGGGGCAATTATCAAAGGTCTGCGTCTTCCACCACCCTCACCTTGTCTGCATCCAGCGCATAGGCCGCATCGGCCAGGTCATTGCTGACCTTCTCCACCTTCAGCTTGCCGCTGACCCACAGCGGG  >  NC_002947/6080845‑6081129

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑