Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,945,368 A→G 14.5% intergenic (+728/+70) PP_5673 → / ← flhB D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,945,3680AG14.5% 126.6 / 12.0 55intergenic (+728/+70)PP_5673/flhBD‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein
Reads supporting (aligned to +/- strand):  ref base A (32/15);  new base G (5/3);  total (37/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGCTTGCCCTTGCCGGCGCG  >  NC_002947/4945224‑4945515
                                                                                                                                                |                                                                                                                                                    
gctcCTACATTTGTTTAGGGCCAGTTATTCATGCTGGATTTACGCGCGAACGCCTTCGCGTACAACTAGATATTGCGCCGTACAAACAAGGCGGTCGCGAGCGCCGGGCACAGGAGGGACTGGCACGAAACAAATGTAGGAGCGAGCtt                                                                                                                                                  >  8:235073/1‑149 (MQ=25)
     tACATTTGTTTGGGGCATTTTTTTCGTGCGGTTTTAACGCGCGACCGCCTGCGCTACCCCCTCCATATTGCGCTGTACAAACACGGCGGTGGGGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTcg                                                                                                                                             <  4:81032/149‑1 (MQ=21)
            gTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATgcg                                                                                                                                      >  8:277619/1‑149 (MQ=255)
             tttCGGGCCATTAATTCCGCCGGGATTTACGCGCGACCCCCTTCGCTTACACCTCGATATTGCCCCGTACAAACATGGCGGGCGGGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATgcg                                                                                                                                      <  4:87411/148‑1 (MQ=37)
               tCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCAATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGcgccg                                                                                                                                   >  1:98027/1‑149 (MQ=255)
                 gggCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCcgcg                                                                                                                                 >  1:301326/1‑149 (MQ=255)
                  ggCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCcgcgc                                                                                                                                >  1:172580/1‑149 (MQ=255)
                              cTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGTAAATCCCGCAGGAATAACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTc                                                                                                                    >  2:257326/1‑148 (MQ=17)
                              cTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCcgcgc                                                                                                                                >  1:349022/1‑137 (MQ=255)
                              cTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTc                                                                                                                    >  3:374984/1‑148 (MQ=255)
                               tGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGa                                                                                                                  >  5:34673/1‑149 (MQ=255)
                                        tACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAg                                                                                                          >  3:285195/1‑148 (MQ=255)
                                        accgcgcgACCCCCTTCGCGTACACCTCGATATTGCGCCTTACAACCATGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAg                                                                                                          <  4:285195/146‑1 (MQ=255)
                                             gcgACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACg                                                                                                    >  7:224779/1‑149 (MQ=255)
                                                  cGCCTTCGCTTACACCTCTATTTTGCGCCGTAAAAACACGGCGGTGGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCGACAAAAAc                                                                                               <  2:98027/149‑1 (MQ=18)
                                                  cGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAAc                                                                                               >  1:154341/1‑149 (MQ=255)
                                                     cTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGTCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTa                                                                                            >  2:287258/1‑149 (MQ=255)
                                                                 cTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGaa                                                                                    >  5:391399/1‑145 (MQ=255)
                                                                 cTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGa                                                                                <  1:287258/149‑1 (MQ=255)
                                                                       atTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTca                                                                                                             <  2:290864/114‑1 (MQ=255)
                                                                       atTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTca                                                                                                             >  1:290864/1‑114 (MQ=255)
                                                                        ttGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTg                                                                         >  6:7802/1‑149 (MQ=255)
                                                                         tGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGt                                                                        >  3:68911/1‑149 (MQ=255)
                                                                                 acaaacaaGGCGGTCGCGCGCGACTGGTGCAGGAGGGACTGGCC‑GAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaaacctccggcaaacacctcaaaattccaacgccg                                                                <  5:215920‑M2/149‑83 (MQ=255)
                                                                                  caaacaaGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCgcggcg                                                                 >  4:91089/1‑147 (MQ=255)
                                                                                   aaacaaGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCa                                                                                                  <  5:357056/113‑1 (MQ=255)
                                                                                   aaacaaGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCa                                                                                                  >  6:357056/1‑113 (MQ=255)
                                                                                           gggggccgcgcgcCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCcggcg                                                      <  6:34673/143‑1 (MQ=255)
                                                                                            ggTCGCGCGCGACTGGTGCAGGAGGGACTGGCC‑GAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaatcctcc                                                                                           >  2:262891‑M2/1‑56 (MQ=255)
                                                                                            ggTCGCGCGCGACTGGTGCAGGAGGGACTGGCC‑GAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaatcctcc                                                                                           <  1:262891‑M2/111‑56 (MQ=255)
                                                                                              tCGCGCGCGACTGGTGCAGGAGGGACTGGCC‑GAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaaacctccggcaaacacctcaaaattccaacgccgtccactcaaaatt                                                   >  6:215920‑M2/1‑54 (MQ=255)
                                                                                                  gcgcgcCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCgg                                               >  5:389233/1‑149 (MQ=255)
                                                                                                      gcCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAgg                                           <  8:224779/149‑1 (MQ=255)
                                                                                                         gggCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGgtcg                                        <  2:154341/149‑1 (MQ=255)
                                                                                                            tgcaggAGGGACTGGCC‑GAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccc                                     >  6:323725‑M2/3‑40 (MQ=255)
                                                                                                             acaGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTcg                                                                      >  2:58692/1‑115 (MQ=255)
                                                                                                             acaGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTcg                                                                      <  1:53221/115‑1 (MQ=255)
                                                                                                             acaGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTcg                                                                      <  1:58692/115‑1 (MQ=255)
                                                                                                             acaGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTcg                                                                      >  2:53221/1‑115 (MQ=255)
                                                                                                                ggaggGACTGGCC‑GAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaa                                 >  8:356525‑M2/1‑36 (MQ=255)
                                                                                                                 gaggGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAg                                >  3:103776/1‑149 (MQ=255)
                                                                                                                        tGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGctct                         >  8:78713/1‑149 (MQ=255)
                                                                                                                          gCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGctct                         <  7:78713/147‑1 (MQ=255)
                                                                                                                            ccGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGgc                     >  4:245332/1‑149 (MQ=255)
                                                                                                                            ccGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGgc                     >  4:217793/1‑149 (MQ=255)
                                                                                                                             cGAAACAAACGTAGGAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgcc                     <  5:347529‑M2/149‑126 (MQ=255)
                                                                                                                                 ccaccggTACGAGCGAGCCGGCTCGCGATGCGCCGCGC‑GGGCGGCGCGCGAGCGCCCCGGCCCCGCAAACCTCTCCCCGCACCGCTCCACTGTCGCGGCGCAGGTCCGGCGGGAGCGGCAGGCCGCCCTTCAGCGGCTCTGGCCGcctg                <  4:36706/143‑1 (MQ=255)
                                                                                                                                  cAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttg                >  3:36706/1‑148 (MQ=255)
                                                                                                                                   aaaTGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGCTGGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttgc               >  1:254000/1‑149 (MQ=255)
                                                                                                                                   aaaTGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttgcc              >  7:145266/1‑149 (MQ=255)
                                                                                                                                     aTGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttgccct            >  6:307413/1‑149 (MQ=255)
                                                                                                                                       gTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttgcccttg          >  2:345971/1‑149 (MQ=255)
                                                                                                                                        tAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttgcccttgc         >  1:177657/1‑149 (MQ=255)
                                                                                                                                        tAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGcttgcccttg          <  7:277619/148‑1 (MQ=255)
                                                                                                                                          ggAGCGGGTTTacccgcgaagcgccgcgcgggcggcgctcgatctcacaggcgctgaaaatcctccggcaaacacctcaaaattccaacgccgtccactcaaaattccaacgccgccccctcaaaattccaacgccgcctcccctcga         >  5:153984‑M2/1‑11 (MQ=255)
                                                                                                                                              cgagcTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGCTTGCCCTTGCCGgcgc   <  4:103776/149‑1 (MQ=255)
                                                                                                                                               gagcTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGCTTGCCCATGCCGGcgcg  >  5:104219/1‑149 (MQ=255)
                                                                                                                                                |                                                                                                                                                    
GCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGCCGGGCACAGGAGGGACTGGCCCGAAACAAATGTAGGAGCGAGCTTGCTCGCGATGCGCCGCGC‑GGGCGGCGCTCGATCTCACAGGCAACGCAAACCTATCGCCGAACAGATCAACTGTCGCGGCGCAGGTCCGGCGGGATCGGCAGGTCGTCCTTCAGTGGCTCTGGGCGCTTGCCCTTGCCGGCGCG  >  NC_002947/4945224‑4945515

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑