Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,871,651 G→C 8.7% H258Q (CAC→CAG)  PP_3420 ← sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,871,6510GC 8.7% 136.3 / 4.4 46H258Q (CAC→CAG) PP_3420sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (21/21);  new base C (2/2);  total (23/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.16e-01

AGCAGCGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTCCACCATGGC  >  NC_002947/3871510‑3871800
                                                                                                                                             |                                                                                                                                                      
agcagcGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCat                                                                                                                                                >  2:18647/1‑150 (MQ=255)
agcagcGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGACTGTcctgctgcacctgctgcag                                                                                                                                                <  2:447166/150‑2 (MQ=255)
     cGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATAtgtg                                                                                                                                           <  2:13798/150‑1 (MQ=255)
              tttCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGgc                                                                                                                                  >  1:428434/1‑150 (MQ=255)
                   tGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACg                                                                                                                            >  1:241253/1‑150 (MQ=255)
                         aGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAg                                                                                                                      <  1:246073/150‑1 (MQ=255)
                             cGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACa                                                                                                                  <  2:245721/150‑1 (MQ=255)
                                    ggAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGaa                                                                                                           <  2:53367/150‑1 (MQ=255)
                                       gCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATc                                                                                                                         >  1:630224/1‑133 (MQ=255)
                                       gCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATc                                                                                                                         <  2:630224/133‑1 (MQ=255)
                                          tATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGAt                                                                                                     <  1:654754/150‑1 (MQ=255)
                                            tGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCa                                                                                                   >  1:367803/1‑150 (MQ=255)
                                            tGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCa                                                                                                   <  1:18647/150‑1 (MQ=255)
                                             gTTGGCCAGCGGGTTACGCATGCTGTGAGCCTCTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCaa                                                                                                  >  2:491559/1‑150 (MQ=255)
                                                   cAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGcccc                                                                                            >  1:631942/1‑150 (MQ=255)
                                                          ttACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCACCTgcagcaggac                                                                                                                                             >  1:396705/1‑91 (MQ=255)
                                                          ttACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCACCTgcagcaggac                                                                                                                                             <  2:396705/95‑5 (MQ=255)
                                                                     gtgAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGc                                                                          >  2:775722/1‑150 (MQ=255)
                                                                          ccACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGa                                                                     >  2:734185/1‑150 (MQ=255)
                                                                           cACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAg                                                                            <  1:551232/142‑1 (MQ=255)
                                                                           cACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAg                                                                            >  2:551232/1‑142 (MQ=255)
                                                                            aCTGCCGACTACATTTCACCCAGCGCAACGTCGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCTCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATc                                                                   <  2:163149/150‑1 (MQ=255)
                                                                             cTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCa                                                                  >  2:3306/1‑150 (MQ=255)
                                                                                  gacgacATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGca                                                               <  2:402699/148‑1 (MQ=255)
                                                                                  gacgacATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGca                                                               >  1:402699/1‑148 (MQ=255)
                                                                                    agacATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATa                                                           <  1:162805/149‑1 (MQ=255)
                                                                                                         gTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGAt                                      <  1:3306/150‑1 (MQ=255)
                                                                                                           aGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTgccgc                                                                                                                                       <  1:144515/52‑1 (MQ=255)
                                                                                                           aGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTgccgc                                                                                                                                       >  2:144515/1‑52 (MQ=255)
                                                                                                              tttCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGt                                 >  1:443724/1‑150 (MQ=255)
                                                                                                                   cTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAg                                                                            >  2:161471/1‑102 (MQ=255)
                                                                                                                   cTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAg                                                                            <  1:161471/102‑1 (MQ=255)
                                                                                                                        caccaGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTAGCGGCTc                       >  1:515940/1‑150 (MQ=255)
                                                                                                                         accaGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTcc                      <  1:734185/150‑1 (MQ=255)
                                                                                                                         accaGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTcc                      <  1:491559/150‑1 (MQ=255)
                                                                                                                           caGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCtt                    <  2:367803/150‑1 (MQ=255)
                                                                                                                             gCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGACCCAGAACAGGCCGAAGTAGATCAACCCCCCACCCCCCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGTTCTTGCGGCTCCTTGt                  <  2:241253/150‑1 (MQ=255)
                                                                                                                                tGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGa               >  1:555056/1‑150 (MQ=255)
                                                                                                                                  atatgctgcACCTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGt                                 >  1:298031/4‑130 (MQ=255)
                                                                                                                                  atatgctgcACCTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGt                                 <  2:298031/127‑1 (MQ=255)
                                                                                                                                    ctgctgCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTc           >  1:113204/1‑150 (MQ=255)
                                                                                                                                     tgctgcAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTcc          >  2:257737/1‑150 (MQ=255)
                                                                                                                                     tgctgcAGGTGCAGCATATGTGCCGCCCGGCCCGTAGAGATGGCTGATGCC‑ATGGAGATTAACGCCCCACCCCCCAGGGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTcc          <  1:775722/150‑1 (MQ=255)
                                                                                                                                        tgcAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGcaca                                                             <  1:769307/96‑1 (MQ=255)
                                                                                                                                        tgcAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGcaca                                                             >  2:769307/1‑96 (MQ=255)
                                                                                                                                        tgcAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAgg                                  >  1:180963/1‑123 (MQ=255)
                                                                                                                                        tgcAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAgg                                  <  2:180963/123‑1 (MQ=255)
                                                                                                                                             gTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTCCACCATGGc  >  1:727343/1‑150 (MQ=255)
                                                                                                                                             |                                                                                                                                                      
AGCAGCGTTGGCGGTTTCCTGGGCAAGTTCGGCGCTGGAGCGTATGTTGGCCAGCGGGTTACGCATGCTGTGAGCCACTGCCGACGACATTTCACCCAGCGCAACGTAGGTTTCGCTTGCCACCAGCCTGTCCTGCTGCAGGTGCAGCATATGTGCCGCCCGGCGC‑ACGATCCAGAACAGGCCGAAGTAGATCAACGCCCCACCCACCAGTGTCGAGGCCCAGATCAGCACATAGCCGCGCTGGATGCGCCGGATGAGGTCTTGCGGCTCCTTGTAGATTTCCACCATGGC  >  NC_002947/3871510‑3871800

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: ‑