Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 2,341,932 C→T 9.7% A361V (GCG→GTG)  bepE_2 → Efflux pump membrane transporter BepE

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24402,341,9320CT 9.7% 112.3 / 4.7 41A361V (GCG→GTG) bepE_2Efflux pump membrane transporter BepE
Reads supporting (aligned to +/- strand):  ref base C (17/20);  new base T (2/2);  total (19/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01

GCTGGCCTATGAAACCGCACGCTTCATCGATGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCTGGTGGTGGACGATGCCATT  >  KT2440/2341801‑2342059
                                                                                                                                   |                                                                                                                               
gcTGGCCTATGAATCCTCACGCTTCATCGATGCGTAGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGTTGTTGGTGATCTGGCTTTTCCTGGGTTCGCGGCGCAGAGTGCTTATCGCggt                                                                                                                              <  8:372604/135‑1 (MQ=255)
  tGGCCTATGAAACCGCACGCTTCATCGATGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCggtgg                                                                                                                            <  7:108274/135‑1 (MQ=255)
        aTGAAACCGCACGCTTCATCGATGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGATGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCGAt                                                                                                                     >  3:283577/1‑136 (MQ=255)
                 cACGCTTCATCGATGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGt                                                                                                             >  7:258246/1‑135 (MQ=255)
                 cACGCTTCATCGAGGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGCCGATCCTGATAGTGGTGTTGGTGATCTGGCTGTGGCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTgg                                                                                                             >  5:364859/1‑134 (MQ=255)
                     cTTCATCGCTGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGAt                                                                                                         <  5:222695/135‑1 (MQ=255)
                     cTTCATCGATGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGAt                                                                                                         <  8:29944/135‑1 (MQ=255)
                                 gTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGTGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGc                                                                                             >  7:234351/1‑135 (MQ=255)
                                 gTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGc                                                                                             >  5:280228/1‑135 (MQ=255)
                                 gTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCGGATCGTGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGc                                                                                             >  7:240172/1‑135 (MQ=255)
                                   cGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGTGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCgg                                                                                           <  8:240172/135‑1 (MQ=255)
                                   cGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGTGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCgg                                                                                           <  8:234351/135‑1 (MQ=255)
                                   cGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTGCGCTGTCGATGCTGGGGGCTGCgg                                                                                           >  2:312069/1‑135 (MQ=255)
                                     aTCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCTCTGTCGATGCTGGGGGCTGCgggg                                                                                         >  6:26870/1‑134 (MQ=255)
                                                gctgcGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCtgatgttgat                                                                              <  8:258246/135‑1 (MQ=255)
                                                    cgcACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGttt                                                                          >  6:68486/1‑135 (MQ=255)
                                                       aCCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGt                                                                       >  7:364879/1‑135 (MQ=255)
                                                            ggtggAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGc                                                                                                <  5:20227/105‑1 (MQ=255)
                                                            ggtggAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGc                                                                 >  4:250977/1‑136 (MQ=255)
                                                            ggtggAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCAGCTGTCGATGCTGGGGGc                                                                                                >  6:20227/1‑105 (MQ=255)
                                                              tggAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGccg                                                               >  4:3435/1‑135 (MQ=255)
                                                                   gCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAAc                                                           >  8:351264/1‑135 (MQ=255)
                                                                      aTGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTAGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAGCctg                                                        >  6:306484/1‑135 (MQ=255)
                                                                      aTGCTGATCGTGGTGTTGGGGATCTGGCTGTGCCTGGGGTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACctgc                                                       <  4:204890/136‑1 (MQ=255)
                                                                         cTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACctgctg                                                     <  3:53941/135‑1 (MQ=255)
                                                                             tCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCtt                                                <  3:307245/136‑1 (MQ=255)
                                                                               gtggtgTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCTCTGTAGATGCTGGGGGCGGCGGGCGTGAGGTGGATGTTTGGTTTCTGCCTCAACCTGCTGAGCTTg                                               >  6:92119/1‑135 (MQ=255)
                                                                                  gtgtTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTg                                            <  7:74093/135‑1 (MQ=255)
                                                                                   tgtTGGTGATCTGGCGGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTgg                                           <  8:287306/135‑1 (MQ=255)
                                                                                    gtTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGTCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGc                                          >  7:326688/1‑135 (MQ=255)
                                                                                       ggggagctggctggGCCTGGGGTCGCTGCGCAGCGTGCTGATCGCGGTGTTGGCCTTTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATg                                      <  3:7372/130‑1 (MQ=255)
                                                                                         tGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGt                                    >  3:232998/1‑136 (MQ=255)
                                                                                                gCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCCACCTGCTGACCTTGCTGGCGATGGTGCTgg                               >  6:74803/1‑134 (MQ=255)
                                                                                                gCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGc                              <  4:232998/135‑1 (MQ=255)
                                                                                                    ggCCGGGGGTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCg                         <  4:196884/135‑1 (MQ=255)
                                                                                                           gTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCtgg                   <  2:263735/135‑1 (MQ=255)
                                                                                                               gCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCtggtggt               <  5:68486/135‑1 (MQ=255)
                                                                                                               gCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCtggtggt               <  2:282967/135‑1 (MQ=255)
                                                                                                                  gcgcAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCTGGTGGTGGa            <  7:333699/135‑1 (MQ=255)
                                                                                                                    gcAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCTGGTGGTGGa            <  5:92119/133‑1 (MQ=255)
                                                                                                                            cTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCTGGTGGTGGACGATGCCAtt  <  6:280228/135‑1 (MQ=255)
                                                                                                                                   |                                                                                                                               
GCTGGCCTATGAAACCGCACGCTTCATCGATGCGTCGATCCATGAAGTGCTGCGCACCTTGGTGGAGGCGATGCTGATCGTGGTGTTGGTGATCTGGCTGTGCCTGGGTTCGCTGCGCAGCGTGCTGATCGCGGTGGTGGCCATTCCGCTGTCGATGCTGGGGGCTGCGGGCCTGATGTTGATGTTTGGTTTCAGCCTCAACCTGCTGACCTTGCTGGCGATGGTGCTGGCCATCGGCCTGGTGGTGGACGATGCCATT  >  KT2440/2341801‑2342059

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑