Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,166,708 T→A 10.4% intergenic (‑552/‑229) PP_5483 ← / → PP_1921 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,166,7080TA10.4% 127.1 / 5.7 48intergenic (‑552/‑229)PP_5483/PP_1921hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (20/23);  new base A (2/3);  total (22/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01

CCCTCGATCAGAAAGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTACTATGACTATGCGCACGACGGGCGGT  >  NC_002947/2166560‑2166856
                                                                                                                                                    |                                                                                                                                                    
cccTCGATCAGAAAGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCt                                                                                                                                                      >  2:45014/1‑149 (MQ=255)
      aTCAGAAAGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAgg                                                                                                                                                <  3:154514/149‑1 (MQ=255)
          gAAAGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGc                                                                                                                                            <  8:165156/149‑1 (MQ=255)
            aaGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAg                                                                                                                                          <  1:45014/149‑1 (MQ=255)
            aaGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGCATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGGCGCTGGGTGAGTGAAGCTCAATCAACCTGGAAGCCAGGTTgatt                                                                                                                                          <  6:269592/149‑4 (MQ=255)
                  ctctCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGATACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgta                                                                                                                                    <  1:281324/149‑1 (MQ=255)
                   tctcAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGAAGCCAGGTTgattgag                                                                                                                                       <  4:298934/145‑7 (MQ=255)
                   tctcAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGAAGCCAGGTTgattgag                                                                                                                                       >  3:298934/1‑139 (MQ=255)
                     tcAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagg                                                                                                                                  >  1:313627/1‑148 (MQ=255)
                     tcAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtag                                                                                                                                   <  2:4684/147‑1 (MQ=255)
                       aGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagg                                                                                                                                  <  5:151193/146‑1 (MQ=255)
                        gCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagt                                                                                                                              <  6:323793/149‑1 (MQ=255)
                          aaCCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtag                                                                                                                            >  4:150525/1‑149 (MQ=255)
                          aaCCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtag                                                                                                                            <  2:313627/149‑1 (MQ=255)
                                  gCAGAGTGTTTAAGGATCGCCTTTGGCCATTATGTGAAACTACCCGCTCCTGGAGCGGTATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGATTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGTTCgtagggagtagtgagtag                                                                                                                     <  8:203290/148‑1 (MQ=255)
                                   cAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagg                                                                                                                    <  3:150525/148‑1 (MQ=255)
                                   cAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagg                                                                                                                    >  5:235285/1‑148 (MQ=255)
                                   cAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagg                                                                                                                    <  6:235285/148‑1 (MQ=255)
                                            tAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagggagtaggga                                                                                                           <  8:43780/148‑1 (MQ=255)
                                            tAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagggagtaggga                                                                                                           <  1:115770/148‑1 (MQ=255)
                                                  tCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAgggg                                                                                                    >  8:79851/1‑149 (MQ=255)
                                                         tGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGga                                                                                              <  8:6129/148‑1 (MQ=255)
                                                                 aTGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGgcg                                                                                     >  1:232352/1‑149 (MQ=255)
                                                                   gtgAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGcgcg                                                                                   >  7:279627/1‑149 (MQ=255)
                                                                             ccGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGgc                                                                                      >  4:310298/1‑136 (MQ=255)
                                                                             ccGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGgc                                                                                      <  3:310298/136‑1 (MQ=255)
                                                                                      gAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAg                                                                                                 >  7:294047/1‑116 (MQ=255)
                                                                                            gatgatCCGAGGGCTGTGGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCa                                                          <  2:232352/149‑1 (MQ=255)
                                                                                             atgatCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGCAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAg                                                         <  1:45993/149‑1 (MQ=255)
                                                                                                    gAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGagagag                                                  <  7:79851/149‑1 (MQ=255)
                                                                                                      gggCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGa                                                                  <  4:172120/131‑1 (MQ=255)
                                                                                                      gggCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGa                                                                  >  3:172120/1‑131 (MQ=255)
                                                                                                          tGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGt                                            >  2:104830/1‑149 (MQ=255)
                                                                                                                 gtgtCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGtt                                     >  6:304171/1‑149 (MQ=255)
                                                                                                                  tgtCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagggagta                                                                                                               >  8:225698/1‑74 (MQ=255)
                                                                                                                  tgtCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCgtagggagtagggagtagggagta                                                                                                               <  7:225698/74‑1 (MQ=255)
                                                                                                                      gCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTAtttt                                >  4:102772/1‑149 (MQ=255)
                                                                                                                                       caatcaaCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTACTATGACTATgcg               >  1:127387/1‑149 (MQ=255)
                                                                                                                                        ctgcaaCCTGGAAGCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTAtt                                  <  8:91016/126‑1 (MQ=255)
                                                                                                                                        ctgcaaCCTGGAAGCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTAtt                                  >  7:91016/4‑129 (MQ=255)
                                                                                                                                        aatcaaCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGcta                            <  2:284562/135‑1 (MQ=255)
                                                                                                                                        aatcaaCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGcta                            >  1:284562/1‑135 (MQ=255)
                                                                                                                                         atcaaCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTAGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTACTATGACTATGCGCa             >  5:262613/1‑149 (MQ=255)
                                                                                                                                           caaCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTAATATGACTATgcgc              >  7:137553/1‑146 (MQ=255)
                                                                                                                                             aCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGctacta                         <  4:239933/133‑1 (MQ=255)
                                                                                                                                             aCCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGctacta                         >  3:239933/1‑133 (MQ=255)
                                                                                                                                              ccTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTACTATGACTATGCGCacgacg        >  5:156539/1‑149 (MQ=255)
                                                                                                                                                  gCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGGAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTTTTTTGCTACTATGACTATGCGCACGACGGGCg    >  8:4005/1‑149 (MQ=255)
                                                                                                                                                  gCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTACTATGACTATGCGCACGACGGGCg    <  6:156539/149‑1 (MQ=255)
                                                                                                                                                    ttCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAAGAGAGAGGAGGCTTGCTGTTATTTTGCTAATATGACAATGCGCACGACGGGCgct  >  1:95889/1‑147 (MQ=255)
                                                                                                                                                    ttCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGGGCAGATTGTGTCGAGCGAAGCAGGAGTGAGGAGGGTTGGTGTTATTTTGCTACTATGACTTTGCGCACGACGGGCGGt  >  4:19786/1‑149 (MQ=255)
                                                                                                                                                    |                                                                                                                                                    
CCCTCGATCAGAAAGTTACTCTCAGCAACCTATTGCAGAGGGTTTAAGGATCGCCGTTGGCCATTATGTGAAACGACCCGCTCCTGGAGCGGGATGATCCGAGGGCTGTTGGGGTGTCGCTGGTTGAGTGAAGCTCAATCAACCTGGCTTCCAGGTTGCAGGTCGTAGGGAGTAGGGAGTAGGGAGTAGGGAGTAGGGGCAGGGAGAGTCGGCGCGGGTGCAGATTCTGTCGAGCGAAGCAGGAGAGAGGAGGGTTGGTGTTATTTTGCTACTATGACTATGCGCACGACGGGCGGT  >  NC_002947/2166560‑2166856

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑