Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,974,448 G→T 9.8% M127I (ATG→ATT)  PP_2601 → IclR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,974,4480GT 9.8% 150.6 / 6.5 51M127I (ATG→ATT) PP_2601IclR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (25/21);  new base T (3/2);  total (28/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01

GCGGTGCCGACATCATCCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCACGTTCCACCGACGAG  >  NC_002947/2974300‑2974595
                                                                                                                                                    |                                                                                                                                                   
gcGGTGCCGACATCATCCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATg                                                                                                                                                     <  5:367878/149‑1 (MQ=255)
        gACATCATCCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGa                                                                                                                                             >  3:298046/1‑149 (MQ=255)
            tcatcCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGgcgc                                                                                                                                               >  5:210485/1‑143 (MQ=255)
            tcatcCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGgcgc                                                                                                                                               <  6:210485/143‑1 (MQ=255)
             catcCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGCGGCGCGACgcgc                                                                                                                                        >  4:6234/1‑149 (MQ=255)
              atcCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGcgcc                                                                                                                                       >  8:2162/1‑149 (MQ=255)
                  aGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATTGGGCGCGACGCGCCGCTg                                                                                                                                   >  7:146561/1‑149 (MQ=255)
                  aGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATTGGGCGCGACGCGCCGCTg                                                                                                                                   >  5:333964/1‑149 (MQ=255)
                    ccGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGtt                                                                                                                                 <  7:2162/149‑1 (MQ=255)
                     cGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCTGATATGGGGCGCGACGCGCCGCTGTTc                                                                                                                                <  1:200089/149‑1 (MQ=255)
                      gATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTc                                                                                                                                >  4:219165/1‑148 (MQ=255)
                       aTTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCta                                                                                                                              <  3:219165/149‑1 (MQ=255)
                        ttCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCtat                                                                                                                             <  7:1628/149‑1 (MQ=255)
                             gACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGt                                                                                                                                  >  3:116215/1‑139 (MQ=255)
                             gACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGt                                                                                                                                  <  4:116215/139‑1 (MQ=255)
                              aCCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATgg                                                                                                                                                    <  6:175004/120‑1 (MQ=255)
                                        ccAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACg                                                                                                             >  2:325528/1‑149 (MQ=255)
                                        ccAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACg                                                                                                             >  7:274364/1‑149 (MQ=255)
                                           ggACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCct                                                                                                          <  5:251007/149‑1 (MQ=255)
                                            gACAGCGGTGAACTGGTGCGACTGGGGGTAATCTACGGTGACCGGAAAACCTGGATCGCAAAGTCTCAGGGGGCCAGCTCCTGGCTGAGCTAAGAACCGGATAGTGGGCGCGACTCGCCGCTGTTCTATACAGCCTCCGGGCACGCctt                                                                                                         >  6:299841/1‑148 (MQ=255)
                                                         tGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTg                                                                                            >  6:239800/1‑149 (MQ=255)
                                                           gTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGa                                                                                          >  4:85807/1‑149 (MQ=255)
                                                           gTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGa                                                                                          >  5:206760/1‑149 (MQ=255)
                                                           gTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGa                                                                                          >  4:90803/1‑149 (MQ=255)
                                                              cgcCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATTGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGa                                                                                       <  6:333964/149‑1 (MQ=255)
                                                              cgcCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATTGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGa                                                                                       <  8:146561/149‑1 (MQ=255)
                                                                 cTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGa                                                                                    <  3:90803/149‑1 (MQ=255)
                                                                 cTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGa                                                                                    <  3:85807/149‑1 (MQ=255)
                                                                           tCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTg                                                                          >  3:38272/1‑149 (MQ=255)
                                                                              aCGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGCCGCGCCGCGGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTg                                                                          >  7:309106/1‑146 (MQ=255)
                                                                               cGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGa                                                                      <  4:38272/149‑1 (MQ=255)
                                                                                 gTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATg                                                                    <  3:6234/149‑1 (MQ=255)
                                                                                  tGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATgg                                                                   >  6:61349/1‑149 (MQ=255)
                                                                                   gCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGgt                                                                  >  6:10293/1‑149 (MQ=255)
                                                                                   gCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGgt                                                                  >  5:271205/1‑149 (MQ=255)
                                                                                     ccGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGgtgt                                                                >  7:87564/1‑149 (MQ=255)
                                                                                     ccGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGgtgt                                                                >  2:128596/1‑149 (MQ=255)
                                                                                       ggCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTg                                                              >  2:11865/1‑149 (MQ=255)
                                                                                        gCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTgc                                                             <  8:87564/149‑1 (MQ=255)
                                                                                        gCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTgc                                                             <  1:325528/149‑1 (MQ=255)
                                                                                                 gATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTa                                                    <  5:61349/149‑1 (MQ=255)
                                                                                                     gCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGc                                                <  5:239800/149‑1 (MQ=255)
                                                                                                       cAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGcc                                               >  7:104902/1‑148 (MQ=255)
                                                                                                               aGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGccgaccccgac                                      <  8:309106/149‑1 (MQ=255)
                                                                                                               aGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGccgaccccga                                       <  1:11865/148‑1 (MQ=255)
                                                                                                               aGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGccgaccccg                                        <  6:206760/147‑1 (MQ=255)
                                                                                                                               gCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAAcg                      >  2:22664/1‑149 (MQ=255)
                                                                                                                                   cgcTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACgcgc                   <  6:271205/148‑1 (MQ=255)
                                                                                                                                    gcTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCa                 >  8:104613/1‑149 (MQ=255)
                                                                                                                                          aCCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCACGTTc            >  6:48595/1‑148 (MQ=255)
                                                                                                                                           cccGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCACGTTCCa          >  6:191312/1‑149 (MQ=255)
                                                                                                                                            ccGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCACGTTCCAc         <  5:10293/149‑1 (MQ=255)
                                                                                                                                                   tGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCACGTTCCACCGACGAg  <  1:128596/149‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                   
GCGGTGCCGACATCATCCAGCCGATTCTTGACCGCCTGGCCCAGGACAGCGGTGAACTGGTGCGCCTTGGGGTAATCGACGGTGCCCGGCAAACCTGGATCGCCAAGTCTCAGGGGGCCCGCTCCGGGCTGCGCTACGACCCGGATATGGGGCGCGACGCGCCGCTGTTCTATACCGCCTCCGGGCACGCCTGGCTGGCCAGCCTGGACGATGAGCAGGCGCTGCAGATGGTGTTGCGCCAAGGTATTGCCGACCCCGACCAGTTCGGCCCGAACGCGCCACGTTCCACCGACGAG  >  NC_002947/2974300‑2974595

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: ‑