Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,452,057 A→T I77N (ATC→AAC)  rplD ← 50S ribosomal subunit protein L4

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,452,0570AT95.9% 249.2 / 0.9 73I77N (ATC→AAC) rplD50S ribosomal subunit protein L4
Reads supporting (aligned to +/- strand):  ref base A (2/1);  new base T (36/34);  total (38/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01

GGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGT  >  NC_000913/3451962‑3452145
                                                                                               |                                                                                        
ggATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCgg                                                                                      >  2:2025338/1‑100 (MQ=255)
ggATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCgg                                                                                      >  1:1552510/1‑100 (MQ=255)
  aTGCTTTTTAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCTCGCCACCAGAACGCCAGTTCGGGc                                                                                    <  2:1183323/100‑1 (MQ=255)
    gCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGctc                                                                                  <  2:215644/100‑1 (MQ=255)
    gCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGctc                                                                                  >  1:1967185/1‑100 (MQ=255)
     cTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTTTTTGTTGTTCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGctct                                                                                 >  2:1624213/1‑100 (MQ=255)
     cTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGctct                                                                                 <  1:1077934/100‑1 (MQ=255)
     cTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGctct                                                                                 >  2:986192/1‑100 (MQ=255)
     cTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGctct                                                                                 >  1:385005/1‑100 (MQ=255)
      ttttCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCtt                                                                                <  1:1026798/100‑1 (MQ=255)
          cAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATa                                                                            <  1:1561709/100‑1 (MQ=255)
            gcgcgcCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGa                                                                          >  1:1423628/1‑100 (MQ=255)
            gcgcgcCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGa                                                                          >  1:1353031/1‑100 (MQ=255)
            gcgcgcCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGa                                                                          >  1:1926859/1‑100 (MQ=255)
             cgcgcCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGaa                                                                         <  1:1127698/100‑1 (MQ=255)
                     ggTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAAcg                                                                 <  1:2025356/100‑1 (MQ=255)
                       tACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAAcgcg                                                               >  1:1858376/1‑100 (MQ=255)
                         cATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCa                                                             >  2:1107544/1‑100 (MQ=255)
                         cATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCa                                                             <  1:1628799/100‑1 (MQ=255)
                            cttcttGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACgg                                                          >  2:947959/1‑100 (MQ=255)
                            cttcttGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACgg                                                          >  1:1626246/1‑100 (MQ=255)
                            cttcttGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACgg                                                          >  2:1236977/1‑100 (MQ=255)
                              tcttGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGcc                                                        >  1:1872291/1‑100 (MQ=255)
                                ttGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCgg                                                      <  2:873411/100‑1 (MQ=255)
                                 tGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGt                                                     >  1:975630/1‑100 (MQ=255)
                                  gTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTg                                                    >  1:661358/1‑100 (MQ=255)
                                    tAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGcc                                                  <  2:1552500/100‑1 (MQ=255)
                                    tAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGcc                                                  <  2:271244/100‑1 (MQ=255)
                                       cTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCAGGTGCCttt                                               >  2:1266036/1‑100 (MQ=255)
                                          tttGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTg                                            >  1:1805753/1‑100 (MQ=255)
                                          tttGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTg                                            <  1:986196/100‑1 (MQ=255)
                                             gACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGgcg                                         <  2:1063442/100‑1 (MQ=255)
                                               cTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGcc                                       >  2:1283942/1‑100 (MQ=255)
                                                 gtgGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCAc                                     <  1:658578/100‑1 (MQ=255)
                                                   ggTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACgg                                   >  1:176842/1‑100 (MQ=255)
                                                   ggTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACgg                                   >  1:465766/1‑100 (MQ=255)
                                                    gTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGt                                  >  2:1702282/1‑100 (MQ=255)
                                                      ccTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGttt                                <  1:1107549/100‑1 (MQ=255)
                                                       cTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGtttt                               >  2:1910486/1‑100 (MQ=255)
                                                       cTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGtttt                               <  1:875006/100‑1 (MQ=255)
                                                        tGCGGACTAGCATCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGttttt                              <  1:417017/100‑1 (MQ=255)
                                                        tGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGttttt                              >  2:307624/1‑100 (MQ=255)
                                                        tGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGttttt                              <  2:975626/100‑1 (MQ=255)
                                                         gCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGtttttt                             >  1:1257193/1‑100 (MQ=255)
                                                         gCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGtttttt                             <  1:1297075/100‑1 (MQ=255)
                                                          cGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCCGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTa                            >  1:1878677/1‑100 (MQ=255)
                                                          cGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTa                            <  1:1083688/100‑1 (MQ=255)
                                                           ggACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTAc                           >  2:269716/1‑100 (MQ=255)
                                                            gACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTAcc                          <  1:1347894/100‑1 (MQ=255)
                                                            gACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTAcc                          <  1:1717027/100‑1 (MQ=255)
                                                            gACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTAcc                          <  1:220585/100‑1 (MQ=255)
                                                            gACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTAcc                          <  1:422025/100‑1 (MQ=255)
                                                            gACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTAcc                          <  1:470353/100‑1 (MQ=255)
                                                             aCGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCg                         <  1:1931078/100‑1 (MQ=255)
                                                             aCGAGCAGCAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCg                         <  1:81636/100‑1 (MQ=255)
                                                                agcagcAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCgg                        >  1:187794/1‑98 (MQ=255)
                                                                agcagcAAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGaa                      >  1:1158357/1‑100 (MQ=255)
                                                                 gcagcaAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAAc                     >  2:683570/1‑100 (MQ=255)
                                                                 gcagcaAAGGTCACGCCACCAGAACGCCAGTTCGGGCACTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAAc                     <  2:1376732/100‑1 (MQ=255)
                                                                    gcaAAGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAg                  >  1:1565492/1‑100 (MQ=255)
                                                                     caAACGTCACGCCACCAGGACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGt                 <  2:1777577/100‑1 (MQ=255)
                                                                      aaaGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGtt                <  2:1967167/100‑1 (MQ=255)
                                                                      aaaGGTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGtt                >  1:1581358/1‑100 (MQ=255)
                                                                         ggTCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACt             <  2:1353022/100‑1 (MQ=255)
                                                                           tCACGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTc           >  1:1666587/1‑100 (MQ=255)
                                                                              cGCCACCAGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGc        <  2:1677467/100‑1 (MQ=255)
                                                                                ccaccaGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCAc      <  2:465765/100‑1 (MQ=255)
                                                                                 caccaGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCTCGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACg     <  2:1305957/100‑1 (MQ=255)
                                                                                   ccaGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAg   >  1:1508810/1‑100 (MQ=255)
                                                                                   ccaGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAg   >  1:1421175/1‑100 (MQ=255)
                                                                                   ccaGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAg   >  1:992494/1‑100 (MQ=255)
                                                                                   ccaGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGCACCAGTTACTTCAGCACGAg   <  2:1247912/100‑1 (MQ=255)
                                                                                     aGAACGCCAGTTCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGAAAAATTACCGGAACCAGTTACTTCAGCACGAGt  >  1:534078/1‑99 (MQ=255)
                                                                                               |                                                                                        
GGATGCTTTTCAGCGCGCCGCGGTACATCTTCTTGTTAACTTTTTGACTGTGGTCCTGCGGACGAGCAGCAAAGGTCACGCCACCAGAACGCCAGATCGGGCTCTTGATAGAACCAGAACGCGCACGGCCGGTGCCTTTCTGGCGCCACGGTTTTTTACCGGAACCAGTTACTTCAGCACGAGT  >  NC_000913/3451962‑3452145

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: ‑