Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,311,358 T→A 8.8% F12I (TTT→ATT) ‡ PP_3784 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,311,3580TA 8.8% 175.2 / 8.1 57F12I (TTT→ATT) ‡PP_3784hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (29/23);  new base A (3/2);  total (32/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.14e-01

GGACACAACCGCGTGCGCTCGCAAACCACTCGTGGCAAGGCGTTTAACCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTCTTGTCGTGGCAGT  >  NC_002947/4311209‑4311503
                                                                                                                                                     |                                                                                                                                                 
ggACACAACCGCGTGCGCTCGCAAACCACTCGTGGCAAGGCGTTTAACCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCAt                                                                                                                                                   >  1:912311/1‑150 (MQ=255)
      aaCCGCGTGCGCTCGCAAACCACTCGTGGCAAGGCGTTTAACCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGt                                                                                                                                             >  2:832845/1‑150 (MQ=255)
                 cTCGCAAACCACTCGTGGCAAGGCGTTTAACCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGcc                                                                                                                                  <  2:912311/150‑1 (MQ=255)
                             tCGTGGCAAGGCGTTTAACCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtcat                                                                                                                      >  1:817321/1‑150 (MQ=255)
                                             aaCCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCa                                                                                                      >  2:573344/1‑150 (MQ=255)
                                              aCCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCACTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCAc                                                                                                     <  1:515521/150‑1 (MQ=255)
                                                    ttCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTAc                                                                                               >  2:382904/1‑150 (MQ=255)
                                                         tAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTg                                                                                          >  1:921984/1‑150 (MQ=255)
                                                          aaCGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGa                                                                                         <  2:873779/150‑1 (MQ=255)
                                                              ctctGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtc                                                                                                                        >  1:1100580/1‑115 (MQ=255)
                                                              ctctGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtc                                                                                                                        <  2:1100580/115‑1 (MQ=255)
                                                                   gCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtcat                                                                                                                      <  1:469701/112‑1 (MQ=255)
                                                                   gCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtcat                                                                                                                      >  2:469701/1‑112 (MQ=255)
                                                                    cccccGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTACCAGACTCCCCTCTGTGCCCATCTTATTTCCCTAGCCCTTCGCCGGGTTTCGGTAGGAAGTCAGCTGTGCCACTTTTACGCCTGACACATTCAGc                                                                               <  2:1042336/150‑1 (MQ=255)
                                                                     ccccGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGAGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCCATTCATCAGTGCCACGTGTACGCCTGACAAATTCAGCg                                                                              >  1:438675/1‑150 (MQ=255)
                                                                      cccGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGa                                                                             <  1:312981/150‑1 (MQ=255)
                                                                       ccGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGccc                                                                                                                                        <  2:338621/90‑1 (MQ=255)
                                                                       ccGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGccc                                                                                                                                        >  1:338621/1‑90 (MQ=255)
                                                                                      gcCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCa                                                             >  2:325015/1‑150 (MQ=255)
                                                                                             cGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTgccgc                                                      <  2:921984/150‑1 (MQ=255)
                                                                                                    gAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCACCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAg                                               <  1:989555/150‑1 (MQ=255)
                                                                                                       aGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCaa                                            >  2:45080/1‑150 (MQ=255)
                                                                                                         gAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACg                                          >  1:1201438/1‑150 (MQ=255)
                                                                                                          aaGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGa                                         >  1:376096/1‑150 (MQ=255)
                                                                                                          aaGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTCGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTa                                                                                                <  1:262778/95‑1 (MQ=255)
                                                                                                          aaGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTCGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTa                                                                                                >  2:262778/1‑95 (MQ=255)
                                                                                                           aGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGaa                                        <  1:325015/150‑1 (MQ=255)
                                                                                                           aGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGaa                                        <  2:817321/150‑1 (MQ=255)
                                                                                                            gATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAAc                                       >  2:164386/1‑150 (MQ=255)
                                                                                                                atcaATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGc                                   >  2:606579/1‑150 (MQ=255)
                                                                                                                     tGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGcaccac                              >  2:28848/1‑150 (MQ=255)
                                                                                                                         tAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCa                                                <  1:267270/128‑1 (MQ=255)
                                                                                                                         tAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCa                                                >  2:267270/1‑128 (MQ=255)
                                                                                                                         tAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACa                                      <  1:330469/138‑1 (MQ=255)
                                                                                                                         tAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACa                                      >  2:330469/1‑138 (MQ=255)
                                                                                                                          aaCAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGc                         <  2:376096/150‑1 (MQ=255)
                                                                                                                          aaCAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGc                         >  2:1081413/1‑150 (MQ=255)
                                                                                                                                aTTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATc                                                  >  2:909928/1‑119 (MQ=255)
                                                                                                                                aTTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATc                                                  <  1:909928/119‑1 (MQ=255)
                                                                                                                                aTTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGtgctg                   >  1:371420/1‑150 (MQ=255)
                                                                                                                                 ttCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGc                                   <  2:971483/133‑1 (MQ=255)
                                                                                                                                 ttCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGc                                   >  1:971483/1‑133 (MQ=255)
                                                                                                                                 ttCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGtgctgc                  <  1:164386/150‑1 (MQ=255)
                                                                                                                                   cccTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGt                >  2:359393/1‑150 (MQ=255)
                                                                                                                                    cggcgaagggCAACGCAAATGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTc               >  2:577674/8‑150 (MQ=255)
                                                                                                                                    ccTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTc               <  1:45080/150‑1 (MQ=255)
                                                                                                                                     cTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtcat                                                                                                                      >  2:411235/1‑46 (MQ=255)
                                                                                                                                     cTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGtcat                                                                                                                      <  1:411235/46‑1 (MQ=255)
                                                                                                                                     cTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTCt              >  2:29463/1‑150 (MQ=255)
                                                                                                                                             gCAACGCAAATGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGa                                                                                         >  2:1176883/1‑67 (MQ=39)
                                                                                                                                             gCAACGCAAATGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGa                                                                                         <  1:1176883/67‑1 (MQ=39)
                                                                                                                                             gCAACGCAAATGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTAAGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCa                                                    <  1:885421/104‑1 (MQ=255)
                                                                                                                                             gCAACGCAAATGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTAAGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCa                                                    >  2:885421/1‑104 (MQ=255)
                                                                                                                                               aaCGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTCTTGTCGTg       >  1:422561/1‑147 (MQ=255)
                                                                                                                                               aaCGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTCTTGTCGTg       <  2:422561/147‑1 (MQ=255)
                                                                                                                                                 cGCATTTGCGTTGCCCTTCGCCGTCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTCTTGTCGTGGCAGt  >  2:1019233/1‑150 (MQ=255)
                                                                                                                                                  gCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGa                                                                                         <  2:1024802/62‑1 (MQ=255)
                                                                                                                                                  gCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGa                                                                                         >  1:1024802/1‑62 (MQ=255)
                                                                                                                                                     |                                                                                                                                                 
GGACACAACCGCGTGCGCTCGCAAACCACTCGTGGCAAGGCGTTTAACCGAATTCCGTAACGCTCTGGCCCCCGAATCGATTGCGCGCCCTCCCGTCAGTGAAAGGAAGATCATCAATGGCTAACAGCATTCCCTCCGGGGGCAACGCATTTGCGTTGCCCTTCGCCGGCTCTCGTCATCAATTCATCAGTGCCACGTGTACGCCTGACACATTCAGCGACTGCCTGTCGCAATCATTGCCGCCATCCAGCAACGAACAGGCACCACTTGGCGTGCTGCGTCTTGTCGTGGCAGT  >  NC_002947/4311209‑4311503

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑