Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,581,445 C→A 6.8% F166L (TTC→TTA PP_3160 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,581,4450CA 6.8% 189.1 / 2.7 59F166L (TTC→TTAPP_3160hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (28/27);  new base A (2/2);  total (30/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.01e-01

TTCAATGCGCCAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCCCAGCCAGGATAAAACACGC  >  NC_002947/3581305‑3581594
                                                                                                                                            |                                                                                                                                                      
ttCAATGCGCCAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTTACTATCCGCCCAGCAGCTTCATTGCgggc                                                                                                                                              <  1:807339‑M2/150‑5 (MQ=255)
 tCAATGCGCCAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGTTCACGTTGACTATCCGCCCAGCAGCTTCATTGCgggcg                                                                                                                                             >  1:825302‑M2/1‑145 (MQ=255)
    aTGCGCCAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGtt                                                                                                                                          <  2:1817783/150‑1 (MQ=255)
     tGCGCCAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCAAGTTAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGttt                                                                                                                                         <  1:233994/150‑1 (MQ=255)
          cAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGtttattta                                                                                                                                    <  1:648345/150‑1 (MQ=255)
           aGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTAc                                                                                                                                   >  2:798313/1‑150 (MQ=255)
              cAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCaa                                                                                                                                <  1:658567/150‑1 (MQ=255)
                 cTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCg                                                                                                                             >  1:986778/1‑150 (MQ=255)
                        ccGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGa                                                                                                                      <  2:1524825/150‑1 (MQ=255)
                        ccGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGa                                                                                                                      <  1:452757/150‑1 (MQ=255)
                        ccGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCGCAATGAAGCTGCtgggcggatagtcaacgtgaccagttgga                                                                                                                     <  2:1536825‑M2/150‑30 (MQ=255)
                                tGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTc                                                                                                              <  2:672731/150‑1 (MQ=255)
                                   tGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCGCAATGAAGCTGCtgggcggatagtcaacgtgaccagttggaacgtgaccact                                                                                                          >  1:1536825‑M2/1‑110 (MQ=255)
                                       ggggCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGca                                                                                                       <  1:518296/150‑1 (MQ=255)
                                            cAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCata                                                                                                  >  1:1310357/1‑150 (MQ=255)
                                            cAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCGCAATGAAGCTGCtgggcggatagtcaacgtgaccagttggaacgt                                                                                                                 >  2:1449680‑M2/1‑101 (MQ=255)
                                            cAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCGCAATGAAGCTGCtgggcggatagtcaacgtgaccagttggaacgt                                                                                                                 <  1:1449680‑M2/134‑34 (MQ=255)
                                                   tATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCAGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTgg                                                                                           >  2:495294/1‑150 (MQ=255)
                                                    aTTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTggg                                                                                          >  2:244136/1‑150 (MQ=255)
                                                       gTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGtt                                                                                                                                          <  1:446433/99‑1 (MQ=255)
                                                       gTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGtt                                                                                                                                          >  2:446433/1‑99 (MQ=255)
                                                       gTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTAACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATAATATCAGTggggcc                                                                                       >  2:619580/1‑148 (MQ=255)
                                                             gCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAg                                                                                 <  2:752980/150‑1 (MQ=255)
                                                              cAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCAGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGcat                                                                                                      <  2:96853/128‑1 (MQ=255)
                                                              cAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCAGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGcat                                                                                                      >  1:96853/1‑128 (MQ=255)
                                                                      aTCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGcatca                                                                                                    <  2:1307133/122‑1 (MQ=255)
                                                                      aTCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGcatca                                                                                                    >  1:1307133/1‑122 (MQ=255)
                                                                       tCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCtt                                                                       >  2:152964/1‑150 (MQ=255)
                                                                           gTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCCTATCAGTGGGGTCAAAAAGCTCCGGCCTTGagc                                                                   >  1:81491/1‑148 (MQ=255)
                                                                            tGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTggg                                                                                          <  1:1549821/126‑1 (MQ=255)
                                                                            tGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTggg                                                                                          >  2:1549821/1‑126 (MQ=255)
                                                                            tGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGaaaa                                                                  <  2:986778/150‑1 (MQ=255)
                                                                              aaCAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATggg                                                                                                                        <  1:73996/94‑1 (MQ=255)
                                                                              aaCAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATggg                                                                                                                        >  2:73996/1‑94 (MQ=255)
                                                                               aCAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATTGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAAccc                                                               >  2:1928877/1‑150 (MQ=255)
                                                                                    gTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGgt                                                          <  1:244136/150‑1 (MQ=255)
                                                                                         tCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCa                                                     >  1:1132911/1‑150 (MQ=255)
                                                                                            gAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGaa                                                  >  2:1162723/1‑150 (MQ=255)
                                                                                                     cGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGa                                         <  1:1217802/150‑1 (MQ=255)
                                                                                                      gTTCCAACTGGTCACGTTTACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATAAAAAAAAAAAAAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGAt                                        <  2:807339/150‑1 (MQ=255)
                                                                                                      gTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGAt                                                                                                                           <  1:252218/67‑1 (MQ=255)
                                                                                                      gTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGAt                                                                                                                           >  2:252218/1‑67 (MQ=255)
                                                                                                       ttCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATg                                       >  2:583133/1‑150 (MQ=255)
                                                                                                        tCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTggg                                                                                          >  1:1652539/1‑98 (MQ=255)
                                                                                                        tCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTggg                                                                                          <  2:1652539/98‑1 (MQ=255)
                                                                                                           aaCTGGTCACGTTGACTATCCGCCCATCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGCGCAGAAGGCAGTGGATGAAtt                                   >  2:1744985/1‑150 (MQ=255)
                                                                                                                      ttGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCtt                                                                       >  1:100984/1‑103 (MQ=255)
                                                                                                                      ttGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCtt                                                                       <  2:100984/103‑1 (MQ=255)
                                                                                                                      ttGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTAccc                        <  2:1132911/150‑1 (MQ=255)
                                                                                                                        gACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTc                      <  1:798313/150‑1 (MQ=255)
                                                                                                                             tCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCccagc                 >  2:1430986/1‑150 (MQ=255)
                                                                                                                               cGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCccagcca               <  2:1115135/150‑1 (MQ=255)
                                                                                                                               cGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCccagcca               >  1:1403039/1‑150 (MQ=255)
                                                                                                                                gCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCccagccag              >  1:811191/1‑150 (MQ=255)
                                                                                                                                gCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCccagccag              >  1:1654495/1‑150 (MQ=255)
                                                                                                                                       agcTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCGTGAAAACCCTCGGTGCGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCCCAGCCAGGATaaaa       <  1:1744985/150‑1 (MQ=255)
                                                                                                                                          ttCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCGCGCAGCCAGGATAAAacac    >  2:1116711/1‑150 (MQ=255)
                                                                                                                                          ttCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTAGACAGTACCCTCCCAGCCAGGATAAAacac    <  1:1162723/150‑1 (MQ=255)
                                                                                                                                           tCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCCCAGCCAGGATAAAACACg   >  2:419691/1‑150 (MQ=255)
                                                                                                                                            cATTGCGGGCGGTTTATTTACCAAGCGATTGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCCCAGCCAGGATAAAACACGc  <  1:1928877/150‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                                      
TTCAATGCGCCAGACAGCTTGAGCCCGTTCGGTGATGGGGGGGCCAATGCGTATTGTTATTGCAAGGGTGATCCAGTGAACAAAGTGGATCCGAGTGGTCACGTTCCAACTGGTCACGTTGACTATCCGCCCAGCAGCTTCATTGCGGGCGGTTTATTTACCAAGCGATGGGGACTCCGCTCGGCGGCATCATATCAGTGGGGTCAAAAAGCTCCGGCCTTGAAAACCCTCGGTGTGCAGAAGGCAGTGGATGAATTCGACAGTACCCTCCCAGCCAGGATAAAACACGC  >  NC_002947/3581305‑3581594

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: