Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,269,254 C→T 9.6% R16H (CGC→CAC)  PP_3740 ← MFS transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,269,2540CT 9.6% 142.5 / 4.9 52R16H (CGC→CAC) PP_3740MFS transporter
Reads supporting (aligned to +/- strand):  ref base C (27/20);  new base T (3/2);  total (30/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.18e-01

CGGCACTGAGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGCCGCTGGATAGC  >  NC_002947/4269111‑4269400
                                                                                                                                               |                                                                                                                                                   
cGGCACTGAGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGAccc                                                                                                                                                >  2:10264/1‑149 (MQ=255)
      tGAGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCggg                                                                                                                                          >  6:368557/1‑149 (MQ=255)
        aGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGt                                                                                                                                         <  4:97048/148‑1 (MQ=255)
        aGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTc                                                                                                                                        <  1:111585/149‑1 (MQ=255)
        aGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTc                                                                                                                                        <  4:97705/149‑1 (MQ=255)
         gCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCg                                                                                                                                       >  3:306763/1‑149 (MQ=255)
           aGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGtt                                                                                                                                     <  5:368557/149‑1 (MQ=255)
           aGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGtt                                                                                                                                     <  6:66422/149‑1 (MQ=255)
                 ccAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTc                                                                                                                                  >  1:157225/1‑146 (MQ=255)
                   aaCCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATc                                                                                                                                             <  4:148463/133‑1 (MQ=255)
                   aaCCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATc                                                                                                                                             >  3:148463/1‑133 (MQ=255)
                   aaCCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGAc                                                                                                                             <  6:124391/149‑1 (MQ=255)
                    aCCTGCGCCCCATTCAGGCCCCACTCGGCACACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACg                                                                                                                            >  1:33494/1‑149 (MQ=255)
                         cgcCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGc                                                                                                                        <  4:306763/148‑1 (MQ=255)
                              cATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCtt                                                                                                                      >  6:129724/1‑145 (MQ=255)
                                  cAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑Cg                                                                                                              <  6:129051/148‑1 (MQ=255)
                                    ggCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTa                                                                                                           <  2:157225/149‑1 (MQ=255)
                                     gCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGTGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTAt                                                                                                          >  3:127840/1‑149 (MQ=255)
                                       cccACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGTGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTc                                                                                                        <  4:127840/149‑1 (MQ=255)
                                                       cGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCg                                                                                        >  5:311516/1‑149 (MQ=255)
                                                            cggcggTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAg                                                                                   <  6:311516/149‑1 (MQ=255)
                                                                 gTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTg                                                                              <  2:129772/149‑1 (MQ=255)
                                                                   gAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTgg                                                                             >  7:182943/1‑148 (MQ=255)
                                                                   gAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTgg                                                                             <  8:182943/148‑1 (MQ=255)
                                                                               cAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGagag                                                                <  1:154497/149‑1 (MQ=255)
                                                                               cAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGagag                                                                >  3:308207/1‑149 (MQ=255)
                                                                                 gCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAgg                                                               >  8:107992/1‑148 (MQ=255)
                                                                                       cGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATg                                                        >  1:71696/1‑149 (MQ=255)
                                                                                                   tCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAgg                                            >  4:205406/1‑149 (MQ=255)
                                                                                                       gTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCa                                              >  4:275625/1‑143 (MQ=255)
                                                                                                       gTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCa                                              <  3:275625/143‑1 (MQ=255)
                                                                                                          gAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGa                                                          <  5:233472/128‑1 (MQ=255)
                                                                                                          gAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGa                                                          >  6:233472/1‑128 (MQ=255)
                                                                                                           aGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACgg                                    >  6:331993/1‑149 (MQ=255)
                                                                                                              atgatgCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGggag                                 <  5:129724/149‑1 (MQ=255)
                                                                                                                       aTACCAATGGCCAGGCACTGAAAGCGCCCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCACCGGGATGACCCCTGa                        >  4:221071/1‑149 (MQ=255)
                                                                                                                       aTACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGa                        <  5:331993/149‑1 (MQ=255)
                                                                                                                            aaTGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGtt                   >  4:109016/1‑149 (MQ=255)
                                                                                                                            aaTGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGtt                   >  5:302579/1‑149 (MQ=255)
                                                                                                                              tGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAG‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCa                 <  6:334955/149‑1 (MQ=255)
                                                                                                                               ggCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAg                >  8:309647/1‑149 (MQ=255)
                                                                                                                                gCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGGTCAGt               >  6:189098/1‑149 (MQ=255)
                                                                                                                                 ccAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGG‑CAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGc             >  2:160151/1‑149 (MQ=255)
                                                                                                                                  cAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGc             >  2:44412/1‑149 (MQ=255)
                                                                                                                                   aGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGcc            >  3:146009/1‑149 (MQ=255)
                                                                                                                                     gCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGCCGc          >  2:185724/1‑149 (MQ=255)
                                                                                                                                       aCTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGATACGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGCCGCt         >  1:76191/1‑149 (MQ=255)
                                                                                                                                         ttaaaGTGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACggg                                   <  8:185383/118‑1 (MQ=255)
                                                                                                                                         tGAAAGTGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACggg                                   >  7:180128/1‑120 (MQ=255)
                                                                                                                                         tGAAAGTGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACggg                                   >  7:185383/1‑120 (MQ=255)
                                                                                                                                            aaGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGCCGCTGGATa    <  3:205406/148‑1 (MQ=255)
                                                                                                                                             aGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGCCGCTGGATAGc  >  3:44365/1‑149 (MQ=255)
                                                                                                                                               |                                                                                                                                                   
CGGCACTGAGCAGAAGCCCAACCTGCGCCCCATTCAGGCCCCACTCGGCAGACACCGAGGCGGCGGTGAAGGCCATGACCAGCACGTCGAAGCCATCGATCATGTTGAGGATGATGCAAATACCAATGGCCAGGCACTGAAAGCGACCCATCGGGTCGTTGTCCAGACGTTGCTTGAGAT‑CGGTATTCATGGGGTCACCTGCCGGCCAGGCTTGGCCAAAGGCGAGAGGAACGATGCGCACGCGCAGGCGCAACGGGAGGAACCCTGACGGTTCAGTGCCGCTGGATAGC  >  NC_002947/4269111‑4269400

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: ‑