Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,472,205 T→A 9.8% K95* (AAG→TAG) ‡ rlmH ← 23S rRNA (pseudouridine(1915)‑N(3))‑methyltransferase RlmH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,472,2050TA 9.8% 147.6 / 8.1 51K95* (AAG→TAG) ‡rlmH23S rRNA (pseudouridine(1915)‑N(3))‑methyltransferase RlmH
Reads supporting (aligned to +/- strand):  ref base T (22/24);  new base A (3/2);  total (25/26)
Fisher's exact test for biased strand distribution p-value = 6.68e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01

AGTCAGCGGCGACAGCGACCAACGTTGCTCGGCGCGCGCGCAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACAGCTCGGCG  >  NC_002947/5472056‑5472353
                                                                                                                                                     |                                                                                                                                                    
aGTCAGCGGCGACAGCGACCAACGTTGCTCGGCGCGCGCGCAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCtt                                                                                                                                                      >  1:99245/1‑150 (MQ=255)
    aGCGGCGACAGCGACCAACGTTGCTCGGCGCGCGCGCAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCa                                                                                                                                                  <  1:427525/150‑1 (MQ=255)
      cggcgACAGCGACCAACGTTGCTCGGCGCGCGCGCAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATg                                                                                                                                                <  2:1280949/150‑1 (MQ=255)
      cggcgACAGCGACCAAAGTTGCTCAGCGACCGCCCAACCATCCGGTGCCCGGTCCTCCGGGTCGCCCACCATCTAATTCTCCGCGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCCTg                                                                                                                                                <  1:826508/150‑1 (MQ=255)
             aGCGACCAACGTTGCTCGGCGCGCGCGCAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCACGGCTTGCCATGGACCTCg                                                                                                                                         >  1:799902/1‑150 (MQ=255)
                                       gcAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTg                                                                                                               >  2:640282/1‑150 (MQ=255)
                                         aaaCCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGa                                                                                                                                              <  1:107592/117‑1 (MQ=255)
                                         aaaCCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGa                                                                                                                                              >  2:107592/1‑117 (MQ=255)
                                             cTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACttt                                                                                                         >  1:944147/1‑150 (MQ=255)
                                              tCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTg                                                                                                        <  1:935571/150‑1 (MQ=255)
                                              tCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCAAGCCATGGagta                                                                                                                                           <  1:1050961/115‑4 (MQ=255)
                                              tCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCAAGCCATGGagta                                                                                                                                           >  2:1050961/1‑112 (MQ=255)
                                                      cAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCAt                                                                                                <  1:640282/150‑1 (MQ=255)
                                                      cAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCAt                                                                                                >  2:1099964/1‑150 (MQ=255)
                                                       aGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATg                                                                                               <  2:1073155/150‑1 (MQ=255)
                                                                   ccgccCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCcctcc                                                                                   <  1:379530/150‑1 (MQ=255)
                                                                       ccaccaTCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGAc                                                                               >  1:1170652/1‑150 (MQ=255)
                                                                         accaTCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCcctc                                                                                    <  2:1155123/143‑1 (MQ=255)
                                                                         accaTCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCcctc                                                                                    >  1:1155123/1‑143 (MQ=255)
                                                                           caTCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGAt                                                                           >  1:485050/1‑150 (MQ=255)
                                                                            aTCAAATTTACCGTGCTCTCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATc                                                                          >  2:17641/1‑150 (MQ=255)
                                                                              cAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCACGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAg                                                                        <  2:799902/150‑1 (MQ=255)
                                                                                  ttCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCGAGGACCGCGAGGGGGACAATCCGTGCCCCAGGCTGCACTGGGCTCAGCATTTCGTCGCCCGCCGGATGGGGCAggcgg                                                                    >  2:1231637/1‑150 (MQ=255)
                                                                                          gcgcgcATCCAGGCGCCAGCGGTCCAGCTCCGTCGCACGTTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTc                                                            <  1:1231637/150‑1 (MQ=255)
                                                                                                aTCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCAtt                                                      >  1:1183637/1‑150 (MQ=255)
                                                                                                   cAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCtt                                                   <  1:1099964/150‑1 (MQ=255)
                                                                                                    aGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTg                                                  >  1:208214/1‑150 (MQ=255)
                                                                                                     ggCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGc                                                 >  1:249155/1‑150 (MQ=255)
                                                                                                      gcgcCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGcc                                                >  1:191925/1‑150 (MQ=255)
                                                                                                          cAGCGGTACAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGTTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACgg                                            <  2:1178006/150‑1 (MQ=255)
                                                                                                          cAGCGGTACAGCTCGGTCGCCAGCTGCTCGGTACTCCAGGGGTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACgg                                            <  2:208214/150‑1 (MQ=255)
                                                                                                                   aGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCt                                                                                            <  1:830236/93‑1 (MQ=255)
                                                                                                                   aGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCt                                                                                            >  2:830236/1‑93 (MQ=255)
                                                                                                                           cGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTc                           <  2:191925/150‑1 (MQ=255)
                                                                                                                              caactgctCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTccac                        >  1:1281471/4‑150 (MQ=255)
                                                                                                                              cAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTccac                        <  2:485050/150‑1 (MQ=255)
                                                                                                                                gctgctCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTccacca                      <  2:935367/150‑1 (MQ=255)
                                                                                                                                 ctgctCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAg                     >  1:856430/1‑150 (MQ=255)
                                                                                                                                     tCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTcc                 <  1:668958/150‑1 (MQ=255)
                                                                                                                                       ggTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAg               >  2:1008517/1‑150 (MQ=255)
                                                                                                                                           gtCCATGGCAAGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCggg                                >  2:663143/2‑129 (MQ=255)
                                                                                                                                           gtCCATGGCAAGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCCCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCggg                                <  1:663143/128‑1 (MQ=255)
                                                                                                                                           cTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACt                                                                                                           >  2:639923/1‑54 (MQ=255)
                                                                                                                                           cTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACt                                                                                                           <  1:639923/54‑1 (MQ=255)
                                                                                                                                            tCCATGGCAAGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACa          >  2:1221181/1‑150 (MQ=255)
                                                                                                                                             ccATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACAg         <  1:1075028/150‑1 (MQ=255)
                                                                                                                                              cATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACAGc        >  1:494128/1‑150 (MQ=255)
                                                                                                                                                tGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTc                           >  2:386940/1‑129 (MQ=255)
                                                                                                                                                tGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTc                           <  1:386940/129‑1 (MQ=255)
                                                                                                                                                  gCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCa                                                                                                    <  1:660540/54‑1 (MQ=255)
                                                                                                                                                  gCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCa                                                                                                    >  2:660540/1‑54 (MQ=255)
                                                                                                                                                   cTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACAGCTcggc   <  2:1281471/150‑1 (MQ=255)
                                                                                                                                                    ttGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACAGCTcggcg  >  1:76457/1‑150 (MQ=255)
                                                                                                                                                     |                                                                                                                                                    
AGTCAGCGGCGACAGCGACCAACGTTGCTCGGCGCGCGCGCAAACCTCAGGCGCCAGGCCCTCCGGGCCGCCCACCATCAAATTCACCGTGCGCGCATCCAGGCGCCAGCGGTCCAGCTCGGTCGCCAGCTGCTCGGTACTCCATGGCTTGCCATGGACCTCGAGGGTGACAATGCGTTCCCCAGGCTGCACTTTGCTCAGCATGGCTTCGCCCTCCTGACGGATCAGGCGGGCGACGTCGGCATTCTTGCCACGGGTATTCAGCGGGATTTCCACCAGCTCCAGCGACAGCTCGGCG  >  NC_002947/5472056‑5472353

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: ‑