Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,471,531 C→T 7.0% A351A (GCC→GCT)  PP_2165 → two‑component system response regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,471,5310CT 7.0% 162.0 / 2.9 57A351A (GCC→GCT) PP_2165two‑component system response regulator
Reads supporting (aligned to +/- strand):  ref base C (28/25);  new base T (2/2);  total (30/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.95e-01

CTGGAAGGCCGCGGCCTGCCGGTGGGGTTGTTCGATGAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAGGAACCTTCAATGAGTACCGGTAGAATTCA  >  NC_002947/2471382‑2471676
                                                                                                                                                     |                                                                                                                                                  
cTGGAAGGCCGCGGCCTGCCGGTGGGGTTGTTCGATGAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCGGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAgcc                                                                                                                                                    >  1:1397887/1‑150 (MQ=255)
       gCCGCGGCCTGCCGGTGGGGTTGTTCGATGAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGc                                                                                                                                             <  1:612734/150‑1 (MQ=255)
                     gTGGGGTTGTTCGATGAGGCCACCTACCAGGACCTGGTGGTGGAGCTACTCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCGGGAGATC‑GTCAAg                                                                                                                              >  1:578614/1‑150 (MQ=255)
                      gcgaactgaattctaccggtactcattgaaggttcctgctcaacaccaatagggcgatatcatccggcatctccccaagcgtagccaatccaaatcgttgacgcagcccatccagactgccacctGCTGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             >  2:73290‑M1/126‑150 (MQ=255)
                              ttCGATGAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCGCCGCAGTTCAGCCTCAGCAAGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAACGATAAAGAAGCCGCCTGGCCGGAGATC‑GCCAAGGAAGCAGGt                                                                                                                     >  2:232716/1‑150 (MQ=255)
                                  aTGAGGACCACTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCa                                                                                                                 <  1:421496/150‑1 (MQ=255)
                                    gAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGt                                                                                                                     >  1:1051706/1‑144 (MQ=255)
                                    gAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGt                                                                                                                     <  2:1051706/144‑1 (MQ=255)
                                      ggCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGc                                                                                                                                             <  1:456917/119‑1 (MQ=255)
                                      ggCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGc                                                                                                                                             >  2:456917/1‑119 (MQ=255)
                                      ggCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCt                                                                                                             >  1:778201/1‑150 (MQ=255)
                                      cggtactcattgaaggttcctgctcaacaccaatagggcgatatcatccggcatctccccaagcgtagccaatccaaatcgttgacgcagcccatccagactgccacctGCTGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             <  1:537655‑M1/25‑1 (MQ=255)
                                      cggtactcattgaaggttcctgctcaacaccaatagggcgatatcatccggcatctccccaagcgtagccaatccaaatcgttgacgcagcccatccagactgccacctGCTGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             >  2:537655‑M1/110‑134 (MQ=255)
                                         ccccTACCAGGACCCGGGGGTGGTGCGACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGa                                                                                                          >  2:167310/3‑150 (MQ=255)
                                         cACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGa                                                                                                          >  1:717738/1‑150 (MQ=255)
                                          ttccgcaaGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCATCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGAt                                                                                                         >  2:1054876/8‑150 (MQ=255)
                                                cAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTg                                                                                                   >  1:76789/1‑150 (MQ=255)
                                                              ggAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTgg                                                                                     >  1:521094/1‑150 (MQ=255)
                                                               gAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGa                                                                                    <  1:270152/150‑1 (MQ=255)
                                                                aGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGAt                                                                                   <  2:778201/150‑1 (MQ=255)
                                                                              ttCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTggg                                                                     <  2:578614/150‑1 (MQ=255)
                                                                                  gcctcagcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGgaga                                                                 <  1:1054876/150‑1 (MQ=255)
                                                                                  catccggcatctccccaagcgtagccaatccaaatcgttgacgcagcccatccagactgccacctGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGt                                                                                                                     <  2:813478‑M1/33‑1 (MQ=255)
                                                                                  catccggcatctccccaagcgtagccaatccaaatcgttgacgcagcccatccagactgccacctGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGt                                                                                                                     >  1:813478‑M1/66‑98 (MQ=255)
                                                                                    ctcagcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATg                                                               >  1:158607/1‑150 (MQ=255)
                                                                                     tcagcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTggg                                                                     >  2:820694/1‑143 (MQ=255)
                                                                                     tcagcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTggg                                                                     <  1:820694/143‑1 (MQ=255)
                                                                                     tcagcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGc                                                              >  2:115621/1‑150 (MQ=255)
                                                                                     tcagcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGc                                                              <  1:232716/150‑1 (MQ=255)
                                                                                       agcctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCg                                                            >  1:1292789/1‑150 (MQ=255)
                                                                                          ctgctgTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTAAGATTGGGGCAATACCGgat                                                         >  2:304588/1‑150 (MQ=255)
                                                                                          ctGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGgat                                                         <  2:158607/150‑1 (MQ=255)
                                                                                            gacgTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             <  2:1159199/77‑1 (MQ=255)
                                                                                            gacgTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             >  1:1159199/4‑80 (MQ=255)
                                                                                             aTGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGgatgat                                                      <  2:76789/150‑1 (MQ=255)
                                                                                                tCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATc                                                   >  2:1093201/1‑150 (MQ=255)
                                                                                                  cGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGc                                                 >  1:924058/1‑150 (MQ=255)
                                                                                                       gCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGCCTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTAt                                            <  2:521094/150‑1 (MQ=255)
                                                                                                         aTTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCg                                                  >  2:289926/1‑142 (MQ=255)
                                                                                                         aTTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCg                                                  <  1:289926/142‑1 (MQ=255)
                                                                                                          ttCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTgg                                         <  2:1397887/150‑1 (MQ=255)
                                                                                                             tGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             <  2:840429/63‑1 (MQ=255)
                                                                                                             tGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAgg                                                                                                                             >  1:840429/1‑63 (MQ=255)
                                                                                                               gACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTg                                    >  2:208378/1‑150 (MQ=255)
                                                                                                                 ccTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAg                                  <  1:304588/150‑1 (MQ=255)
                                                                                                                   ttttGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGgt                                        <  2:32966/142‑1 (MQ=255)
                                                                                                                   ttttGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGgt                                        >  1:32966/1‑142 (MQ=255)
                                                                                                                     ttGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAgg                              <  1:208378/150‑1 (MQ=255)
                                                                                                                              agcccatccagactgccacctGCTGCCTTGACG‑ATCTCCGGCAAGGCGGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAGGAACCTTCaa                     <  1:161864‑M1/129‑1 (MQ=255)
                                                                                                                               aTACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGCATGATATCGCCCTATTGGTGTTGAGCAGGAACCTTCAAt                    <  1:1136968/150‑1 (MQ=255)
                                                                                                                                   gCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAGGAACCTTCAATGAGt                >  2:1334749/1‑150 (MQ=255)
                                                                                                                                       aaaGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTggg                                                                     <  1:746962/93‑1 (MQ=255)
                                                                                                                                       aaaGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTggg                                                                     >  2:746962/1‑93 (MQ=255)
                                                                                                                                       aaaGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAGGAACGTTGAATGAGTACCg            >  1:107812/1‑150 (MQ=255)
                                                                                                                                       aaaGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAGGAACCTTCAATGAGTACCg            <  1:167310/150‑1 (MQ=255)
                                                                                                                                              aagaagCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCATATTGATGTTGGTTAGGAACCTTCAATGAGTACCGGTAGAAt     >  2:114820/1‑150 (MQ=255)
                                                                                                                                                gaagCCGCCTTGCCGGAGATC‑GTCAAGGCAACAGGTGTCCGTCTAGATGGGCTGCGTCAACGATTTGGATTGGCTCCGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCACGAACCTTCAATGAGTACCGGTCGAATTc   >  1:47544/1‑150 (MQ=255)
                                                                                                                                                 aagCCGCCTGGCGGGAGATC‑GGCAAGGGAGCAGGTGGCAGTCGGGGTGGGGTGCGGCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGTCCTATTGGTGTTGAGCAGGAACCTTCAATGAGTACCGGTAGAATTCa  <  2:455508/150‑1 (MQ=255)
                                                                                                                                                     |                                                                                                                                                  
CTGGAAGGCCGCGGCCTGCCGGTGGGGTTGTTCGATGAGGCCACCTACCAGGACCTGGTGGTGGAGCTACCCCCGCAGTTCAGCCTCAGCCTGATGTCCGATGGCATTCTGGACCTTTTGCCGGGTGATACGCTCAAAGATAAAGAAGCCGCCTTGCCGGAGATC‑GTCAAGGCAGCAGGTGGCAGTCTGGATGGGCTGCGTCAACGATTTGGATTGGCTACGCTTGGGGAGATGCCGGATGATATCGCCCTATTGGTGTTGAGCAGGAACCTTCAATGAGTACCGGTAGAATTCA  >  NC_002947/2471382‑2471676

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑