Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,360,333 G→C 10.3% A278G (GCC→GGC)  PP_3835 ← two‑component system sensor histidine kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,360,3330GC10.3% 109.2 / 5.8 39A278G (GCC→GGC) PP_3835two‑component system sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (18/17);  new base C (2/2);  total (20/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.92e-01

CTCGAAGATGCGCGGCAGTATCTCTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCAATGCATGTTCAAGCAGGCCACGCGTAGCGTTAAC  >  NC_002947/4360185‑4360481
                                                                                                                                                    |                                                                                                                                                     
cTCGAAGATGCGCGGCAGTATCTCTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGc                                                                                                                                                      >  1:671302/1‑150 (MQ=255)
   gAAGATGCGCGGCAGTATCTCTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGACGCGGCGATGCCCTTCGATGGCATc                                                                                                                                                   >  2:296625/1‑150 (MQ=255)
        tGCGCGGCAGTATCTCTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATGGACAGTCAGGCTGATTCGGCCATGCCCGTCGATGGCATCACggg                                                                                                                                             <  2:1111305/150‑1 (MQ=255)
         gcgcGGCAGTATCTCTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGc                                                                                                                                            <  2:317956/150‑1 (MQ=255)
                    tctcTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACgg                                                                                                                                              >  2:770343/1‑137 (MQ=255)
                    tctcTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACgg                                                                                                                                              <  1:770343/137‑1 (MQ=255)
                          tgGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGa                                                                                                                           <  2:604197/150‑1 (MQ=255)
                                tGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCCGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAaca                                                                                                                     <  1:296625/150‑1 (MQ=255)
                                   cTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGa                                                                                                                           <  2:285447/141‑1 (MQ=255)
                                   cTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGa                                                                                                                           >  1:285447/1‑141 (MQ=255)
                                    ttCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCAt                                                                                                                 >  1:272727/1‑150 (MQ=255)
                                        ccgcTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGc                                                                                                             >  2:1217102/1‑150 (MQ=255)
                                         cgcTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCa                                                                                                            >  1:413163/1‑150 (MQ=255)
                                           cTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTGATGCCATCGACGGGCAtgg                                                                                                                                        >  1:295075/1‑118 (MQ=255)
                                           cTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTGATGCCATCGACGGGCAtgg                                                                                                                                        <  2:295075/120‑3 (MQ=255)
                                                      cTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATc                                                                                               <  2:1085881/150‑1 (MQ=255)
                                                            gcgcACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTc                                                                                         <  1:1217102/150‑1 (MQ=255)
                                                                          ccttcagcccttcaACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGt                                                                           <  2:671302/150‑1 (MQ=255)
                                                                          ccttcagcccttcaACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGt                                                                           >  1:94601/1‑150 (MQ=255)
                                                                           cttcagcccttcaACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTc                                                                          >  2:1091222/1‑150 (MQ=255)
                                                                                     tcaACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGccc                                                                                                     >  2:1005362/1‑113 (MQ=255)
                                                                                     tcaACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGccc                                                                                                     <  1:1005362/113‑1 (MQ=255)
                                                                                            cGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCt                                                         <  2:94601/150‑1 (MQ=255)
                                                                                                    aacTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCaccgca                                                 >  2:1236639/1‑145 (MQ=255)
                                                                                                      cTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACAcc                                                          >  2:331902/1‑139 (MQ=255)
                                                                                                      cTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACAcc                                                          <  1:331902/139‑1 (MQ=255)
                                                                                                       tCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATc                                              >  2:1201453/1‑150 (MQ=255)
                                                                                                                tCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCa                                                                              >  2:1112418/1‑109 (MQ=255)
                                                                                                                tCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCa                                                                              <  1:1112418/109‑1 (MQ=255)
                                                                                                                  gACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGCTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCaa                                   >  1:448604/1‑150 (MQ=255)
                                                                                                                     aGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCt                                                                                                               >  2:999927/1‑71 (MQ=255)
                                                                                                                     aGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCt                                                                                                               <  1:999927/71‑1 (MQ=255)
                                                                                                                       tCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCa                                                                              <  1:936847/102‑1 (MQ=255)
                                                                                                                       tCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCa                                                                              >  2:936847/1‑102 (MQ=255)
                                                                                                                        cAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCAATGCATg                             <  1:1091222/150‑1 (MQ=255)
                                                                                                                              gATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCAATGCATGTTCAAg                       <  1:1201453/150‑1 (MQ=255)
                                                                                                                                       aTGCCCGTGATGCCATCGACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCaa                                                     <  1:809935/111‑1 (MQ=255)
                                                                                                                                       aTGCCCGTGATGCCATCGACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCaa                                                     >  2:809935/1‑111 (MQ=255)
                                                                                                                                           ccGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCAATGCATGTTCAAGCAGGCCACGCGTa          >  1:955178/1‑150 (MQ=255)
                                                                                                                                                   ggCATCACGGGGATTGAACCACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCAATGCATGTTCAAGCAGGCCACGCGTAGCGTTAAc  <  2:448604/150‑1 (MQ=255)
                                                                                                                                                    |                                                                                                                                                     
CTCGAAGATGCGCGGCAGTATCTCTGTGGGTATGCCTTCGCCGCTGTCTTCCACCTCGAAGCGCACGAAGCTGCCCTTCAGCCCTTCAACTTCGCCGAACAACTCGACCACATCGACAGTCAGGCTGATGCGGCCATGCCCGTCGATGGCATCACGGGCATTGAACAACAGGTTGAGCAACACCATCTGCAGTTGCCCGGCATCCACCTCGATCAACGGCAGGTCCGGTTGCAGCAACACCTTCAAGTCAATCGAGCTTGGCAATGCATGTTCAAGCAGGCCACGCGTAGCGTTAAC  >  NC_002947/4360185‑4360481

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: