Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,859,571 T→A 8.6% intergenic (‑121/+35) PP_1662 ← / ← PP_1663 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,859,5710TA 8.6% 176.2 / 7.4 58intergenic (‑121/+35)PP_1662/PP_1663hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (25/28);  new base A (3/2);  total (28/30)
Fisher's exact test for biased strand distribution p-value = 6.65e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.26e-01

AGTGTGTCGCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGTTGCACCAGCAGGTAGTCCCA  >  NC_002947/1859439‑1859713
                                                                                                                                    |                                                                                                                                              
aGTGTGTCGCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCCCAGTGCGGGGCttttcttt                                                                                                                               <  1:906060/150‑7 (MQ=255)
  tgtgtCGCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTAtt                                                                                                                             <  1:878335/150‑1 (MQ=255)
    tgtCGCACGTCTTGTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTgc                                                                                                                           <  2:762020/150‑1 (MQ=255)
      tCGCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTgcag                                                                                                                         >  2:149199/1‑150 (MQ=255)
        gCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCa                                                                                                                                   <  2:588930/138‑1 (MQ=255)
        gCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCa                                                                                                                                   <  2:588860/138‑1 (MQ=255)
        gCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCa                                                                                                                                   >  1:588930/1‑138 (MQ=255)
        gCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCa                                                                                                                                   >  1:588860/1‑138 (MQ=255)
        gCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTgcaggc                                                                                                                       >  1:630497/1‑150 (MQ=255)
         cACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTgcaggca                                                                                                                      <  2:188760/150‑1 (MQ=255)
          aCGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTAtt                                                                                                                             >  2:909702/1‑142 (MQ=255)
          aCGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTAtt                                                                                                                             <  1:909702/142‑1 (MQ=255)
             tcttctTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGTGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTgca                                                                                                                          <  1:755838/142‑1 (MQ=255)
             tcttctTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGTGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTgca                                                                                                                          >  2:755838/1‑142 (MQ=255)
              cttcttTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTgcg                                                                                                                 >  1:104863/1‑150 (MQ=255)
               ttcttTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTgcgc                                                                                                                >  2:450970/1‑150 (MQ=255)
                     ataGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAg                                                                                                          >  1:261262/1‑150 (MQ=255)
                         agTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGc                                                                                                      <  1:450970/150‑1 (MQ=255)
                         agTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGc                                                                                                      <  1:728557/150‑1 (MQ=255)
                                 aGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCAcc                                                                                              >  1:227114/1‑150 (MQ=255)
                                    aGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGTGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCGTCACCgcc                                                                                           <  2:104863/150‑3 (MQ=255)
                                    aGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGc                                                                                           >  1:1029522/1‑150 (MQ=255)
                                     gACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTAtt                                                                                                                             >  2:640319/1‑115 (MQ=255)
                                     gACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTAtt                                                                                                                             <  1:640319/115‑1 (MQ=255)
                                     gACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCt                                                                                          >  1:959207/1‑150 (MQ=255)
                                      aCTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGAGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGGGCGATCATTTGCCCTTCACCGGCtt                                                                                         <  2:617411/150‑1 (MQ=255)
                                          agtaagtaAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCa                                                                                     <  1:1201735/150‑1 (MQ=255)
                                           gtaagtaaAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCCCAGTGCGGGGCttttc                                                                                                                                  >  1:1205565/1‑101 (MQ=39)
                                           gtaagtaaAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCCCAGTGCGGGGCttttc                                                                                                                                  <  2:1205565/104‑4 (MQ=39)
                                           gtaagtaaAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGACGGGACTTCAGGTATAGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCAt                                                                                    >  1:683383/1‑150 (MQ=255)
                                            taagtaaAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATc                                                                                   <  2:233743/150‑1 (MQ=255)
                                              agtaaAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGa                                                                                 <  2:1029522/150‑1 (MQ=255)
                                               gtaaAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGAc                                                                                >  2:966898/1‑150 (MQ=255)
                                                  aaaCAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGt                                                                             >  1:1085787/1‑150 (MQ=255)
                                                        gtaTGAAACAAGTTTAATGAAGATCGAAAGGATGCTGCCTAGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGAGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATc                                                                       <  2:504285/148‑1 (MQ=255)
                                                         cATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATcc                                                                      >  2:23701/1‑150 (MQ=255)
                                                              aaCAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGtt                                                                                                        <  1:704540/111‑1 (MQ=255)
                                                              aaCAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGtt                                                                                                        >  2:704540/1‑111 (MQ=255)
                                                              aaCAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTgcag                                                                 >  1:591748/1‑150 (MQ=255)
                                                                      tCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATca                                                         <  1:193869/150‑1 (MQ=255)
                                                                         tGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGGAGGCAGTGCGCGATCAGTTGc                                                                                                      >  1:509966/1‑102 (MQ=255)
                                                                         tGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGc                                                                                                      <  2:509966/102‑1 (MQ=255)
                                                                                 gAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCa                                                                                                                                   <  1:1051166/65‑1 (MQ=255)
                                                                                 gAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCa                                                                                                                                   >  2:1051166/1‑65 (MQ=255)
                                                                                 gAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTc                                                  <  1:473333/146‑1 (MQ=255)
                                                                                 gAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTc                                                  >  2:473333/1‑146 (MQ=255)
                                                                                   aGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGcc                                            <  2:227114/150‑1 (MQ=255)
                                                                                       aTGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCg                                        <  1:149199/150‑1 (MQ=255)
                                                                                             ccTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGAt                                                                                                             <  1:466149/75‑1 (MQ=255)
                                                                                             ccTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGAt                                                                                                             >  2:466149/1‑75 (MQ=255)
                                                                                                         tggtCGCAGCAAAGAGAGGCCCCGCACTGGGCGGGGCGTCAGGTATTGCAGGCAGTGCGTGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGt                      <  2:255537/147‑1 (MQ=255)
                                                                                                                agcaAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCg                                        <  2:527481/125‑1 (MQ=255)
                                                                                                                agcaAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCg                                        >  1:527481/1‑125 (MQ=255)
                                                                                                                       tgaaGCCCCGCCCAGTGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGTTGCACCAGCAGGTa        >  1:940932/3‑150 (MQ=255)
                                                                                                                       tgaaGCCCCGCCCAGTGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGCCGCAGTTGCACCAGCAGGTa        >  1:1180879/3‑150 (MQ=255)
                                                                                                                       aaaaGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGTTGCACCAGCAGGTa        <  2:630497/150‑1 (MQ=255)
                                                                                                                             cccGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGTTGCACCAGCAGGTAGTCCCa  >  2:1097548/1‑150 (MQ=255)
                                                                                                                             cccGAACTGGGCGGGGACTCAGTTATCGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGTTGCACCAGCAGGTAGTCCCa  <  2:261262/150‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                              
AGTGTGTCGCACGTCTTCTTTATAGAGTTTGTTAGCAGACTAAGTAAGTAAAACAGGCATGAAACAAGTTTCATGAAGCTCGAAGGGATGCTGCCTGGGTGGGCTTTTTCGCAGCAAAGAAAAGCCCCGCACTGGGCGGGGCTTCAGGTATTGCAGGCAGTGCGCGATCAGTTGCCCTTCACCGGCTTGCCATCGACCGTGCCATCCTGCAGCACGATCACATACTCCTTGCCATCGGTCTCTACCTGGCGCAGTTGCACCAGCAGGTAGTCCCA  >  NC_002947/1859439‑1859713

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