Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,176,897 C→G 7.0% R379P (CGT→CCT)  PP_4553 ← ECF family RNA polymerase sigma‑70 factor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,176,8970CG 7.0% 179.1 / 3.1 57R379P (CGT→CCT) PP_4553ECF family RNA polymerase sigma‑70 factor
Reads supporting (aligned to +/- strand):  ref base C (30/23);  new base G (2/2);  total (32/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01

CGCGTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTCGCCAGCGCCAC  >  NC_002947/5176750‑5177042
                                                                                                                                                   |                                                                                                                                                 
cgcgTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCAcgc                                                                                                                                                 <  2:586531/150‑1 (MQ=255)
   gTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGcc                                                                                                                                              >  1:1262865/1‑150 (MQ=255)
               ggCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGt                                                                                                                                  >  1:1299442/1‑150 (MQ=255)
                 cACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGAGCGTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTcc                                                                                                                                <  1:114670/150‑1 (MQ=255)
                     cTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGc                                                                                                                            <  2:717485/150‑1 (MQ=255)
                           gAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCCGCTGGCaa                                                                                                                      >  1:894982/1‑150 (MQ=255)
                           gAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCaa                                                                                                                      <  2:78287/150‑1 (MQ=255)
                            aGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAAt                                                                                                                     <  1:704198/150‑1 (MQ=255)
                             gCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATg                                                                                                                    <  2:953185/150‑1 (MQ=255)
                               gggCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGGAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGGCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGcc                                                                                                                  >  1:467366/1‑149 (MQ=255)
                                    tGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCg                                                                                                             <  2:201068/150‑1 (MQ=255)
                                      cccATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGgc                                                                                                           <  2:1262865/150‑1 (MQ=255)
                                             aGCGGCCGGCCCCCCCATCATACGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGACAGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGcc                                                                                                    >  2:215215/1‑150 (MQ=255)
                                                       ccccccATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCa                                                                                          >  1:1227841/1‑150 (MQ=255)
                                                         ccccATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTATTGCACCTTGCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCCgg                                                                                        >  1:1386787/1‑150 (MQ=255)
                                                           ccATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTg                                                                                      >  2:1071350/1‑150 (MQ=255)
                                                                 ttCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATCGTc                                                                                >  2:266567/1‑150 (MQ=255)
                                                                      tAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTgg                                                                                                                         <  1:821578/104‑1 (MQ=255)
                                                                      tAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTgg                                                                                                                         >  2:821578/1‑104 (MQ=255)
                                                                           tGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                                      >  1:1189415/1‑150 (MQ=255)
                                                                            gCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGc                                                                                                     >  1:1151992/1‑118 (MQ=255)
                                                                            gCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGc                                                                                                     <  2:1151992/118‑1 (MQ=255)
                                                                               aaCGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATg                                                                                                                    <  2:1016334/100‑1 (MQ=255)
                                                                               aaCGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATg                                                                                                                    >  1:1016334/1‑100 (MQ=255)
                                                                                  gccgcTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCcgcg                                                               >  1:571241/1‑150 (MQ=255)
                                                                                     gcTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCa                                                            <  2:571241/150‑1 (MQ=255)
                                                                                         gctatGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGGAACTCGCCGCCTGCCGCATGGGCCAGGTGATAGTCGAGAACCTCACGCCACGCCAGact                                                        >  1:428317/3‑148 (MQ=255)
                                                                                           tatGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATcc                                                      >  2:5849/1‑150 (MQ=255)
                                                                                              gccgccGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCCCACGCCGCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCtt                                                   >  2:1262203/1‑150 (MQ=255)
                                                                                              gccgccGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCtt                                                   <  2:1299442/150‑1 (MQ=255)
                                                                                              gccgccGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCtt                                                   <  1:1071350/150‑1 (MQ=255)
                                                                                                cgccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCa                                                                                                                                       <  2:1263091/64‑1 (MQ=255)
                                                                                                cgccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCa                                                                                                                                       >  1:1263091/1‑64 (MQ=255)
                                                                                                 gccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATa                                                                                   >  2:492626/1‑115 (MQ=255)
                                                                                                 gccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATa                                                                                   <  1:492626/115‑1 (MQ=255)
                                                                                                     ttCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTACCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGt                                                                                                       >  1:257755/1‑91 (MQ=255)
                                                                                                     ttCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTACCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGt                                                                                                       <  2:257755/91‑1 (MQ=255)
                                                                                                       cAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTccc                                          <  2:1139179/150‑1 (MQ=255)
                                                                                                          gcgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                                      <  1:669725/119‑1 (MQ=255)
                                                                                                          gcgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                                      <  1:669675/119‑1 (MQ=255)
                                                                                                          gcgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                                      >  2:669675/1‑119 (MQ=255)
                                                                                                          gcgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                                      >  2:669725/1‑119 (MQ=255)
                                                                                                           cgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCaa                                      <  1:5849/150‑1 (MQ=255)
                                                                                                                        aaGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGc                         >  2:1126183/1‑150 (MQ=255)
                                                                                                                           gCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCa                      >  1:499417/1‑150 (MQ=255)
                                                                                                                            gaggcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGa                                                <  2:134906/120‑1 (MQ=255)
                                                                                                                            gaggcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGa                                                >  1:134906/4‑123 (MQ=255)
                                                                                                                             cAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAagccagc                                <  1:544812/138‑1 (MQ=255)
                                                                                                                             cAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAagccagc                                >  2:544812/1‑138 (MQ=255)
                                                                                                                              aGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATcc                   >  1:1298687/1‑150 (MQ=255)
                                                                                                                               gcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCa                      >  1:793971/1‑146 (MQ=255)
                                                                                                                               gcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCa                      <  2:793971/146‑1 (MQ=255)
                                                                                                                                 gcCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGc                >  1:1158975/1‑150 (MQ=255)
                                                                                                                                    tgctgcCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTc             <  1:215215/150‑1 (MQ=255)
                                                                                                                                             gCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCa                                                                              <  2:1195833/76‑1 (MQ=255)
                                                                                                                                             gCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCa                                                                              >  1:1195833/1‑76 (MQ=255)
                                                                                                                                               cGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTCGCCAGCGCCAc  >  1:875600/1‑150 (MQ=255)
                                                                                                                                               cGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTCGCCAGCGCCAc  >  1:875610/1‑150 (MQ=255)
                                                                                                                                                   |                                                                                                                                                 
CGCGTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTCGCCAGCGCCAC  >  NC_002947/5176750‑5177042

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑