Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,349,275 C→T 8.0% I583I (ATC→ATT)  PP_4704 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,349,2750CT 8.0% 146.0 / 2.4 50I583I (ATC→ATT) PP_4704hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (28/18);  new base T (2/2);  total (30/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.10e-01

GCAGCCCTATGCACGCTTCATCATCAACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCCACAGCCGGCCAAGGTCGACGTCAAGG  >  NC_002947/5349131‑5349420
                                                                                                                                                |                                                                                                                                                 
gcAGCCCTATGCACGCTTCATCATCAACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCGCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGc                                                                                                                                               <  8:351190/149‑1 (MQ=255)
            aCGCTTCATCATCAACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATc                                                                                                                                    >  4:59238/1‑148 (MQ=255)
                ttCATCATCAACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAacga                                                                                                                               <  3:59238/149‑1 (MQ=255)
                    tcatcaACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGc                                                                                                                           <  3:117793/149‑1 (MQ=255)
                      atcaACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTc                                                                                                                         >  6:231566/1‑149 (MQ=255)
                      atcaACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGCCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTCACATCAACGCCGGCTc                                                                                                                         >  5:153009/1‑149 (MQ=255)
                          aCGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGc                                                                                                                      >  4:152279/1‑148 (MQ=255)
                          aCGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGc                                                                                                                      >  8:221846/1‑148 (MQ=255)
                             aaGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAAc                                                                                                                  >  3:339158/1‑149 (MQ=255)
                                      ccaccaATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGAc                                                                                                         <  4:339158/149‑1 (MQ=255)
                                      ccaccaATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGAc                                                                                                         >  8:95684/1‑149 (MQ=255)
                                       caccaATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATTGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGAcc                                                                                                        >  5:101987/1‑149 (MQ=255)
                                               tCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCtt                                                                                                <  3:152279/149‑1 (MQ=255)
                                                  aTGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTAcc                                                                                             <  2:180997/149‑1 (MQ=255)
                                                  aTGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTAcc                                                                                             <  7:95684/149‑1 (MQ=255)
                                                         gctgATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACt                                                                                      >  5:39620/1‑149 (MQ=255)
                                                         gctgATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACt                                                                                      >  1:203247/1‑149 (MQ=255)
                                                                 cGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATTGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACg                                                                              >  4:294396/1‑149 (MQ=255)
                                                                 cGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACg                                                                              >  4:169180/1‑149 (MQ=255)
                                                                  gCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACgg                                                                             <  5:231566/149‑1 (MQ=255)
                                                                          ccGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATTGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAg                                                                     <  3:294396/149‑1 (MQ=255)
                                                                                 cccGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTc                                                               >  3:111914/1‑148 (MQ=255)
                                                                                  ccGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAacga                                                                                                                               <  1:143613/83‑1 (MQ=255)
                                                                                  ccGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAacga                                                                                                                               >  2:143613/1‑83 (MQ=255)
                                                                                     gCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACgg                                                          >  1:233888/1‑149 (MQ=255)
                                                                                              cagccCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCgg                                                 >  7:261413/1‑149 (MQ=255)
                                                                                                  ccAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACt                                                                >  3:16968/1‑130 (MQ=255)
                                                                                                  ccAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACt                                                                <  4:16968/130‑1 (MQ=255)
                                                                                                  ccAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCAc                                              >  6:105230/1‑148 (MQ=255)
                                                                                                    aaGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCAt                                           <  7:221846/149‑1 (MQ=255)
                                                                                                    aaGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCAt                                           >  3:23848/1‑149 (MQ=255)
                                                                                                         gACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACa                                      >  1:130783/1‑149 (MQ=255)
                                                                                                           ccACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAAc                                    <  4:23848/149‑1 (MQ=255)
                                                                                                               ggCCAGCAACAACAAGCCGCTTGGCATCCATATCg                                                                                                                                                  <  3:335725/35‑1 (MQ=255)
                                                                                                               ggCCAGCAACAACAAGCCGCTTGGCATCCATATCg                                                                                                                                                  >  4:335725/1‑35 (MQ=255)
                                                                                                                 ccAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATc                                          >  1:263352/1‑137 (MQ=255)
                                                                                                                 ccAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATc                                          <  2:263352/137‑1 (MQ=255)
                                                                                                                   aGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGcc                            >  6:357255/1‑149 (MQ=255)
                                                                                                                     caacaacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCca                           >  5:313927/1‑148 (MQ=255)
                                                                                                                     caacaacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCca                           >  1:336937/1‑148 (MQ=255)
                                                                                                                       acaacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGa                                        >  2:244503/1‑133 (MQ=255)
                                                                                                                       acaacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGa                                        <  1:244503/133‑1 (MQ=255)
                                                                                                                         aacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTc                                                                                                                         >  7:272828/1‑50 (MQ=255)
                                                                                                                         aacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTc                                                                                                                         <  8:272828/50‑1 (MQ=255)
                                                                                                                         aacaaGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCCACAGcc                      >  5:73796/1‑149 (MQ=255)
                                                                                                                              gCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGc                                                >  5:95516/1‑118 (MQ=255)
                                                                                                                              gCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGc                                                <  6:95516/118‑1 (MQ=255)
                                                                                                                                        aTCCATATTGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCCACAGCCGGCCAAGGTCGACGt       <  6:101987/149‑1 (MQ=255)
                                                                                                                                           cATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCCACAGCCGGCCAAGGTCGACGTCaa    <  5:105230/149‑1 (MQ=255)
                                                                                                                                             tatCGGGCAGATTGACATAAACGACGGATCGGCCAACTTTGCCGACCTGTCGCTTACACCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATAGGCACCATCGACAACCGCAAGCCACAGCCGGCCAAGGTCGCCGTCAAgg  >  3:96182/1‑149 (MQ=255)
                                                                                                                                                |                                                                                                                                                 
GCAGCCCTATGCACGCTTCATCATCAACGAAGACCGCACCACCAATGTCAATGACCTGCTGATCCCGCAACCGGCCGACGCCCCGGCGAGCAGCCAGCCCAAGCCGACCACGGCCAGCAACAACAAGCCGCTTGGCATCCATATCGGGCAGATTGACATCAACGACGGCTCGGCCAACTTTGCCGACCTGTCGCTTACCCCCAACTTCGCCACGGCCATCCAGCAACTCAACGGCCAGATCGGCACCATCGACAACCGCAAGCCACAGCCGGCCAAGGTCGACGTCAAGG  >  NC_002947/5349131‑5349420

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: ‑