Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,253,579 A→T 7.8% I154F (ATC→TTC)  PP_5702 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,253,5790AT 7.8% 141.7 / 3.0 51I154F (ATC→TTC) PP_5702hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (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 = 6.68e-01

CGAGCGCACTGCTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCACCCCGAACTGCACACTCAAGT  >  NC_002947/5253433‑5253727
                                                                                                                                                  |                                                                                                                                                    
cGAGCGCACTGCTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATc                                                                                                                                                    <  5:274699/149‑1 (MQ=255)
       aCTGCTCGATGCCCATGACGAGGCAAGTGGCCTCTGGGTGAGCGAGATTTCGTTCAAAGGCGTGCTGCTGGAACTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGATGCGCTTCGCCCCCGGCGGCATCACCGCGAGCGAAGTg                                                                                                                                              >  5:55403/1‑148 (MQ=255)
          gCTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAGCTGCATg                                                                                                                                          >  2:292025/1‑149 (MQ=255)
           cTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCAt                                                                                                                                           <  7:247884/147‑1 (MQ=255)
           cTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATgg                                                                                                                                         >  4:20349/1‑149 (MQ=255)
           cTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCCAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCAt                                                                                                                                           <  5:277610/147‑1 (MQ=255)
             cGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCG‑CCCCGGCGGCATCACCCCGATCGAACTGCATGgtgt                                                                                                                                      >  1:311426/1‑149 (MQ=255)
                tGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCG‑CCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGtt                                                                                                                                   <  2:311426/149‑1 (MQ=255)
                  gccATGTCGAGGCTAGTGGCCTGTGGGTGCGCGAGATTTCCTTAATAGGCCGGCTGCTGGTAGTCCGTTATTTCCCATCAGCCCCTACCCTATTCGAGCTGCGCTTCGCCCCCGGCGGGATCACCCCGATCGAAGTGCATGGTGtttt                                                                                                                                   <  6:55403/147‑1 (MQ=255)
                   ccATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGTTCGAACTGCATGGTGTGTTgg                                                                                                                                 >  5:320058/1‑149 (MQ=255)
                   ccATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTgg                                                                                                                                 <  6:309422/149‑1 (MQ=255)
                                    gCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACg                                                                                                                <  3:20349/149‑1 (MQ=255)
                                         tgGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCt                                                                                                           >  4:93047/1‑149 (MQ=255)
                                          gggTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTg                                                                                                          >  5:319443/1‑149 (MQ=255)
                                           ggTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTg                                                                                                          <  1:293294/148‑1 (MQ=255)
                                                   agaTTTCCTTCAAAGGCGGGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTAc                                                                                                 <  1:292025/149‑1 (MQ=255)
                                                    gaTTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACg                                                                                                <  2:164333/149‑1 (MQ=255)
                                                       ttCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCCCGGACCTGGCTGCCTACGAcc                                                                                             >  1:319081/1‑149 (MQ=255)
                                                             cAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACAGACCTGGCTGCCTACGACCTCGGc                                                                                        >  1:302440/1‑148 (MQ=255)
                                                              aaaGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGcc                                                                                       <  6:319443/148‑1 (MQ=255)
                                                              aaaGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTACGCCCCCGGCGGCATCACACCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGcc                                                                                       >  7:133394/1‑148 (MQ=255)
                                                                aGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCa                                                                                      >  1:228416/1‑147 (MQ=255)
                                                                 ggCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAg                                                                                   <  3:118405/149‑1 (MQ=255)
                                                                  gCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGc                                                                                  >  2:3122/1‑149 (MQ=255)
                                                                           tgGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGTTCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCa                                                                               >  2:318005/1‑143 (MQ=255)
                                                                           tgGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGTTCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCa                                                                               <  1:318005/143‑1 (MQ=255)
                                                                           tgGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCg                                                                           >  5:112927/1‑147 (MQ=255)
                                                                            ggAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCg                                                                           >  6:58556/1‑146 (MQ=255)
                                                                                   cGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCgaa                                                                         <  1:191320/141‑1 (MQ=255)
                                                                                   cGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCgaa                                                                         >  2:191320/1‑141 (MQ=255)
                                                                                   cGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCg                                                                  >  4:236709/1‑148 (MQ=255)
                                                                                    gTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGTTCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGaa                                                                <  6:320058/149‑1 (MQ=255)
                                                                                    gTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGaa                                                                <  3:93047/149‑1 (MQ=255)
                                                                                    gTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGaa                                                                >  7:223393/1‑149 (MQ=255)
                                                                                    gTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCGACGACCTCGGCCAAAGCCCAGCCGAAGAAGTCGac                                                                >  8:160786/1‑148 (MQ=255)
                                                                                     tGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAAc                                                               <  3:236709/149‑1 (MQ=255)
                                                                                       aTTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGc                                                             >  3:251508/1‑149 (MQ=255)
                                                                                                 aGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACt                                                   <  5:58556/149‑1 (MQ=255)
                                                                                                   ccccTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGAc                                                    <  6:280016/146‑1 (MQ=255)
                                                                                                   ccccTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCCGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGAc                                                    >  5:280016/1‑146 (MQ=255)
                                                                                                         cccGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACAtcctc                                           <  2:228416/149‑1 (MQ=255)
                                                                                                            gCTTCGAGCTGCGCTTCGCGGCCGGCGGCATCACGCGGATCGATCTGCATGGGGTGTTGTGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTGGGCGAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACTTGCTCCAg                                        <  8:223393/149‑1 (MQ=255)
                                                                                                             cTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCg                                                                  >  8:80947/1‑122 (MQ=255)
                                                                                                             cTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCg                                                                  <  7:80947/122‑1 (MQ=255)
                                                                                                                  aGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCAc                                  >  3:244103/1‑149 (MQ=255)
                                                                                                                       cgcTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACAGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGc                               <  2:302440/147‑1 (MQ=255)
                                                                                                                             gCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCa                       <  4:251508/149‑1 (MQ=255)
                                                                                                                              cccccGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCAc                      >  5:193161/1‑149 (MQ=255)
                                                                                                                               ccccGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACAtc                                              <  2:53428/124‑1 (MQ=255)
                                                                                                                                    gcggcATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCACCCCGaa                <  1:3122/149‑1 (MQ=255)
                                                                                                                                               ccGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCACCCCGAACTGCACACTc      >  4:168440/1‑148 (MQ=255)
                                                                                                                                                  aTCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCACCCCGAACTGCACACTCAAGt  >  7:123159/1‑149 (MQ=255)
                                                                                                                                                  |                                                                                                                                                    
CGAGCGCACTGCTCGATGCCCATGACGAGGCAAGTGGCCTGTGGGTGCGCGAGATTTCCTTCAAAGGCGTGCTGCTGGAAGTCCGTGATTTGCCAACAGCCCCTACCCGCTTCGAGCTGCGCTTCGCCCCCGGCGGCATCACCCCGATCGAACTGCATGGTGTGTTGGGCCGGCGCATCGGCACGGACCTGGCTGCCTACGACCTCGGCCAAAGCCCAGCCGAAGAAATCGAACGCCTGCGCGACTACATCCTCCAGGCCCACCGCCACGCCCACCCCGAACTGCACACTCAAGT  >  NC_002947/5253433‑5253727

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: ‑