Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,587,917 C→T 7.8% H428Y (CAT→TAT)  PP_2266 → DNA‑directed RNA polymerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,587,9170CT 7.8% 147.2 / 2.4 51H428Y (CAT→TAT) PP_2266DNA‑directed RNA polymerase
Reads supporting (aligned to +/- strand):  ref base C (23/24);  new base T (2/2);  total (25/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.26e-01

ACCGCTACTCCCCGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGCACGCGGCT  >  NC_002947/2587771‑2588058
                                                                                                                                                  |                                                                                                                                              
aCCGCTACTCCCCGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCAt                                                                                                                                              >  4:173916/1‑149 (MQ=255)
  cGCTACTCCCCGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATgg                                                                                                                                            <  7:186431/149‑1 (MQ=255)
   gCTACTCCCCGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATg                                                                                                                                             >  4:81583/1‑147 (MQ=255)
   gCTACTCCCCGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATg                                                                                                                                             <  3:81583/147‑1 (MQ=255)
           ccGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGtg                                                                                                                                  >  1:87056/1‑149 (MQ=255)
                           aggccccGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACgg                                                                                                                   <  4:231507/144‑1 (MQ=255)
                           aCTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACgg                                                                                                                   <  4:38100/148‑1 (MQ=255)
                                 cGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAAc                                                                                                            <  2:87056/149‑1 (MQ=255)
                                     ccAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTg                                                                                                         <  3:309789/148‑1 (MQ=255)
                                       aaCTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTACGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTTGCAATCCACGGGGCGAACGTGGcc                                                                                                      >  2:111267/1‑149 (MQ=255)
                                        aCTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCaa                                                                                                                                     <  6:64181/117‑1 (MQ=255)
                                        aCTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCaa                                                                                                                                     >  5:64181/1‑117 (MQ=255)
                                                   gTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGTATGGG‑GCCAAGtggctg                                                                                                                              >  8:74629/1‑113 (MQ=255)
                                                   gTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGTATGGG‑GCCAAGtggctg                                                                                                                              >  8:70234/1‑113 (MQ=255)
                                                   gTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGTATGGG‑GCCAAGtggctg                                                                                                                              <  7:74629/113‑1 (MQ=255)
                                                   gTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGTATGGG‑GCCAAGtggctg                                                                                                                              <  7:70234/113‑1 (MQ=255)
                                                      gCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGcc                                                                                       <  7:107466/149‑1 (MQ=255)
                                                         gCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAAc                                                                                                            <  6:314834/125‑1 (MQ=255)
                                                         gCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAAc                                                                                                            >  5:314834/1‑125 (MQ=255)
                                                                   ggTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGATACGACAAGGCCAGCCTGGAGGAcc                                                                          >  1:166095/1‑149 (MQ=255)
                                                                         gCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTg                                                                     >  7:262485/1‑148 (MQ=255)
                                                                            ccTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGt                                                                 >  1:302425/1‑149 (MQ=255)
                                                                            ccTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGt                                                                 >  1:307199/1‑149 (MQ=255)
                                                                                aaCCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTggg                                                              <  3:173916/148‑1 (MQ=255)
                                                                                aaCCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGt                                                             >  2:273841/1‑149 (MQ=255)
                                                                                aaCCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGATACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGt                                                             <  2:166095/149‑1 (MQ=255)
                                                                                 aCCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGt                                                             <  8:262485/148‑1 (MQ=255)
                                                                                   ccccAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCa                                                          <  3:153186/149‑1 (MQ=255)
                                                                                     ccACGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCAc                                                         >  2:46752/1‑148 (MQ=255)
                                                                                      cAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGa                                                       <  2:307199/149‑1 (MQ=255)
                                                                                      cAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGa                                                       <  2:302425/149‑1 (MQ=255)
                                                                                                aCCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCg                                             <  4:156575/149‑1 (MQ=255)
                                                                                                     acGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAAt                                        >  1:293202/1‑149 (MQ=255)
                                                                                                     acGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAAt                                        >  3:153816/1‑149 (MQ=255)
                                                                                                            gCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGc                                  >  8:30049/1‑148 (MQ=255)
                                                                                                                  tCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATtgct                           >  4:56570/1‑149 (MQ=255)
                                                                                                                     gATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GACAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGCGTCCACGATCACCAAGCGGAAATCCTGGCGATTgctgct                        >  4:152503/1‑149 (MQ=255)
                                                                                                                        tCGCCTACGGCAAGGCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGAc                     >  7:272753/1‑149 (MQ=255)
                                                                                                                           ccTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTg                                    <  8:134754/131‑1 (MQ=255)
                                                                                                                           ccTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTg                                    >  7:134754/1‑131 (MQ=255)
                                                                                                                                ggCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATtgctgc                         >  1:287552/1‑137 (MQ=255)
                                                                                                                                ggCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATtgctgc                         <  2:287552/137‑1 (MQ=255)
                                                                                                                                 gCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAg            <  1:273841/149‑1 (MQ=255)
                                                                                                                                 gCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAg            <  2:293202/149‑1 (MQ=255)
                                                                                                                                   aaGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGc          <  7:30049/149‑1 (MQ=255)
                                                                                                                                      ccGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACCAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGCAcg       >  3:117261/1‑149 (MQ=255)
                                                                                                                                       cGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGCAcgc      >  4:132090/1‑149 (MQ=255)
                                                                                                                                        gCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATtgctgc                         >  2:138705/1‑129 (MQ=255)
                                                                                                                                        gCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATtgctgc                         <  1:138705/129‑1 (MQ=255)
                                                                                                                                            tgctaGCATGGGCCCCTAGTGGCTGGCAATCCACGGGGCTAACGTGGCCGTGTACGACAAGGCCAGCCTGGATGACCGCGTGAAGTGGGTCCACGATCACCAAGCGTAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGCACGCGGCt  <  1:111267/145‑1 (MQ=255)
                                                                                                                                            ggCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGCACGCGGCt  <  3:246613/148‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                              
ACCGCTACTCCCCGTTCCGCAAGATTTACTTCCCGTACCAACTGGACTTCCGTGGCCGCATCTACGCGGTGCCGCACCTGAACCCCCAAGGCGCGGACCACACGAAGGGCTTGCTCCGATTCGCCTACGGCAAGCCGCTGGGCGAGCATGGG‑GCCAAGTGGCTGGCAATCCACGGGGCGAACGTGGCCGGGTACGACAAGGCCAGCCTGGAGGACCGCGTGAAGTGGGTCCACGATCACCAAGCGGAAATCCTGGCGATTGCTGCTGACCCGTTCCAGGCACGCGGCT  >  NC_002947/2587771‑2588058

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: ‑