Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,581,096 C→T 6.7% A50V (GCG→GTG)  PP_3160 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,581,0960CT 6.7% 170.6 / 2.1 59A50V (GCG→GTG) PP_3160hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (26/29);  new base T (2/2);  total (28/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01

GGTCACAGCCATGCAGCAGTCGCAGAAACAAATTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGATTCACCGGCCAGCGGAAAGACACTC  >  NC_002947/3580950‑3581245
                                                                                                                                                  |                                                                                                                                                     
ggTCACAGCCATGCAGCAGTCGCAGAAACAAATTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGTGCt                                                                                                                                                    >  2:172900/1‑150 (MQ=255)
    acaGCCATGCAGCAGTCGCAGAAACAAATTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTAc                                                                                                                                                >  2:1141135/1‑150 (MQ=255)
            gcagcaGTCGCAGAAACAAATTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGa                                                                                                                                        <  2:798514/150‑1 (MQ=255)
                     gCAGAAACAAATTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAgg                                                                                                                               >  2:682252/1‑150 (MQ=255)
                             aaaTTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGTGCTTTACGCAGCGGATCTACAAGGCTCGGTTc                                                                                                                       >  2:1204992/1‑150 (MQ=255)
                                   atttCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGTGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGAt                                                                                                                 <  1:172900/150‑1 (MQ=255)
                                   atttCTACGCGCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGAt                                                                                                                 <  2:301130/150‑1 (MQ=255)
                                            cTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGc                                                                                                        <  1:1497707/150‑1 (MQ=255)
                                               ccGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGaa                                                                                                     >  2:698067/1‑150 (MQ=255)
                                                cGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGaaa                                                                                                    <  1:698067/150‑1 (MQ=255)
                                                 gAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAAt                                                                                                   >  2:719961/1‑150 (MQ=255)
                                                      aCTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAAc                                                                                              >  1:426067/1‑150 (MQ=255)
                                                        tttCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACaa                                                                                                                                 <  1:1525443/113‑1 (MQ=255)
                                                        tttCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACaa                                                                                                                                 >  2:1525443/1‑113 (MQ=255)
                                                        tttCGCTGGCCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGa                                                                                            >  2:1568101/1‑150 (MQ=255)
                                                              tGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATTTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAGTCTGa                                                                                      >  1:276727/1‑150 (MQ=255)
                                                                gTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGTACGCTGGCGCAGCGTGATTATGCCCCAAATGCGCCGGAACTGGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATg                                                                                    >  1:779838/1‑150 (MQ=255)
                                                                gTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGa                                                                                                                                        >  2:400321/1‑98 (MQ=255)
                                                                gTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGa                                                                                                                                        <  1:400321/98‑1 (MQ=255)
                                                                gTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCAt                                                                                                             >  1:951435/1‑125 (MQ=255)
                                                                gTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCAt                                                                                                             <  2:951435/125‑1 (MQ=255)
                                                                gTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATg                                                                                    >  2:26996/1‑150 (MQ=255)
                                                                   aaaTATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACaa                                                                                                                                 <  2:1507448/102‑1 (MQ=255)
                                                                   aaaTATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACaa                                                                                                                                 >  1:1507448/1‑102 (MQ=255)
                                                                   aaaTATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCAc                                                                                 >  1:955056/1‑150 (MQ=255)
                                                                   aaaTATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCACGTGACTCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCAc                                                                                 >  1:1335460/1‑150 (MQ=255)
                                                                     atatGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTa                                                                               <  1:719961/150‑1 (MQ=255)
                                                                       atGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTaca                                                                             <  1:682252/150‑1 (MQ=255)
                                                                               gcAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTAt                                                                     <  2:955056/150‑1 (MQ=255)
                                                                               gcAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTAt                                                                     <  1:1159045/150‑1 (MQ=255)
                                                                                 aGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGc                                                                                                                                           <  1:120962/78‑1 (MQ=255)
                                                                                 aGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGc                                                                                                                                           >  2:120962/1‑78 (MQ=255)
                                                                                     gcgtCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGAGTATGGCTgg                                                               <  1:264973/147‑1 (MQ=255)
                                                                                     gCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTgg                                                               <  1:265100/150‑1 (MQ=255)
                                                                                           gCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGTGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGc                                                         <  1:1204992/150‑1 (MQ=255)
                                                                                           gCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGc                                                         <  2:426067/150‑1 (MQ=255)
                                                                                                ggTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCaaaa                                                    <  1:26996/150‑1 (MQ=255)
                                                                                                     gcgcAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTg                                               <  2:1641945/150‑1 (MQ=255)
                                                                                                       gcagcaGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAggg                                                                                                                   <  2:440350/80‑1 (MQ=255)
                                                                                                       gcagcaGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAggg                                                                                                                   >  1:440350/1‑80 (MQ=255)
                                                                                                         agcagGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAAc                                                                                              <  2:477007/99‑1 (MQ=255)
                                                                                                         agcagGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAAc                                                                                              >  1:477007/1‑99 (MQ=255)
                                                                                                         agcagGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGc                                           <  2:779838/150‑1 (MQ=255)
                                                                                                           cagGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCAt                                         >  2:1540137/1‑150 (MQ=255)
                                                                                                                cGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGc                                                                  <  1:487149/120‑1 (MQ=255)
                                                                                                                cGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACAAGGCGTATGGc                                                                  >  2:487149/1‑120 (MQ=255)
                                                                                                                  gACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAAt                                                                                                   <  2:916946/85‑1 (MQ=255)
                                                                                                                  gACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAAt                                                                                                   >  1:916946/1‑85 (MQ=255)
                                                                                                                      cTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTGTGGCTGGGACAGCCAAAATACTGATACATCAGCGttgttg                              <  1:1568101/150‑1 (MQ=255)
                                                                                                                      cTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGttgttg                              <  1:1141135/150‑1 (MQ=255)
                                                                                                                           gcAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTa                                                                               >  2:917780/1‑96 (MQ=255)
                                                                                                                           gcAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTa                                                                               <  1:917780/96‑1 (MQ=255)
                                                                                                                           gcAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGAtt                         >  1:1394111/1‑150 (MQ=255)
                                                                                                                           gcAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGAtt                         <  2:1394111/150‑1 (MQ=255)
                                                                                                                                        gTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGGAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCgttgtt                               >  1:199423/1‑131 (MQ=255)
                                                                                                                                        gTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCgttgtt                               <  2:199423/131‑1 (MQ=255)
                                                                                                                                        gTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGATTCACCGGCCAGCgg            >  1:1404355/1‑150 (MQ=255)
                                                                                                                                              gCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGATTCATCGGCCAGCTTAAAGac      <  2:1637024/150‑1 (MQ=255)
                                                                                                                                              gCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGATTCACCGGCCAGCGGAAAGac      >  2:1494783/1‑150 (MQ=255)
                                                                                                                                                  cgcTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGATTCACCGGCCAGCGGAAAGACActc  >  1:1231739/1‑150 (MQ=255)
                                                                                                                                                  |                                                                                                                                                     
GGTCACAGCCATGCAGCAGTCGCAGAAACAAATTTATTTCTACGCTCCCGAAGGACTTTCGCTGGTCAAATATGTTGGCGCAGAAGCTTCGGCTTTGGTGCGCGCAGCAGGCCGGACGCTGGCGCAGCGTGATGATGTCCAGGCAGCGCTTTACGCAGCGGATCTACAAGGCTCGGTTCAGGGATGCATTGGGCGAAATGCAACGAACCTGATGCACTACACGGCGTATGGCTGGGACAGCCAAAATACTGATGCATCAGCGTTGTTGCGATTCACCGGCCAGCGGAAAGACACTC  >  NC_002947/3580950‑3581245

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: ‑