Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,176,885 T→G 7.0% Q383P (CAG→CCG)  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_0029475,176,8850TG 7.0% 162.0 / 4.7 57Q383P (CAG→CCG) PP_4553ECF family RNA polymerase sigma‑70 factor
Reads supporting (aligned to +/- strand):  ref base T (29/24);  new base G (2/2);  total (31/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.07e-01

AACCCGCTAACGCGTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTC  >  NC_002947/5176740‑5177031
                                                                                                                                                 |                                                                                                                                                  
aaCCCGCTAACGCGTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCa                                                                                                                                                <  2:650829/150‑1 (MQ=255)
    cGCTAACGCGTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGcc                                                                                                                                            >  1:586531/1‑150 (MQ=255)
          cgcgTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCAcgc                                                                                                                                      <  2:586531/150‑1 (MQ=255)
             gTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGcc                                                                                                                                   >  1:1262865/1‑150 (MQ=255)
                         ggCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAg                                                                                                                                               >  2:1298084/1‑126 (MQ=255)
                         ggCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAg                                                                                                                                               <  1:1298084/126‑1 (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                                                                                                              >  2:821578/1‑104 (MQ=255)
                                                                                tAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTgg                                                                                                              <  1:821578/104‑1 (MQ=255)
                                                                                     tGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                           >  1:1189415/1‑150 (MQ=255)
                                                                                      gCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGc                                                                                          <  2:1151992/118‑1 (MQ=255)
                                                                                      gCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGc                                                                                          >  1:1151992/1‑118 (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                                        <  1:1071350/150‑1 (MQ=255)
                                                                                                        gccgccGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCtt                                        <  2:1299442/150‑1 (MQ=255)
                                                                                                          cgccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCa                                                                                                                            >  1:1263091/1‑64 (MQ=255)
                                                                                                          cgccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCa                                                                                                                            <  2:1263091/64‑1 (MQ=255)
                                                                                                           gccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATa                                                                        <  1:492626/115‑1 (MQ=255)
                                                                                                           gccgTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATa                                                                        >  2:492626/1‑115 (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                                                           >  2:669725/1‑119 (MQ=255)
                                                                                                                    gcgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTcc                                                           >  2:669675/1‑119 (MQ=255)
                                                                                                                     cgcCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCaa                           <  1:5849/150‑1 (MQ=255)
                                                                                                                                  aaGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGc              >  2:1126183/1‑150 (MQ=255)
                                                                                                                                     gCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCa           >  1:499417/1‑150 (MQ=255)
                                                                                                                                      gaggcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGa                                     >  1:134906/4‑123 (MQ=255)
                                                                                                                                      gaggcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGa                                     <  2:134906/120‑1 (MQ=255)
                                                                                                                                       cAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAagccagc                     <  1:544812/138‑1 (MQ=255)
                                                                                                                                       cAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAagccagc                     >  2:544812/1‑138 (MQ=255)
                                                                                                                                        aGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATcc        >  1:1298687/1‑150 (MQ=255)
                                                                                                                                         gcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCa           <  2:793971/146‑1 (MQ=255)
                                                                                                                                         gcgcGTGCGGCCTGGCAGCAGGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCa           >  1:793971/1‑146 (MQ=255)
                                                                                                                                           gcCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGc     >  1:1158975/1‑150 (MQ=255)
                                                                                                                                              tgctgcCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTc  <  1:215215/150‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                  
AACCCGCTAACGCGTTGATTTAGCAGGCACCCTGAGGGAGCGGGCTTGCCCATGAAGCGGCCGGCCCCCCCATCATTCGATAGCCTGCAAACGCCGCTCGATATGCCGCCGTTCAGGCGCCTGCCGGGTCAAGGCCAGCGCCTGCTGCCAGGCCGCACGCGCCTCTTGCACCTGTCCCAGCTGGCAATGCAACTCGGCGCGTGCCGCATGTGCCAGGTGATAGTCCAGCAACTCCCCCCGCGCCAGAATCCCTTCGACTTCCCGCAAGCCAGCCTCCGGCCCATCCCGCTTC  >  NC_002947/5176740‑5177031

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: ‑