Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 541,976 C→T 8.6% D592D (GAC→GAT)  fusA → Elongation factor G 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT2440541,9760CT 8.6% 136.7 / 2.9 46D592D (GAC→GAT) fusAElongation factor G 1
Reads supporting (aligned to +/- strand):  ref base C (28/14);  new base T (2/2);  total (30/16)
Fisher's exact test for biased strand distribution p-value = 6.02e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTCTCCAACGAAGTCGTTGGTGGTGTGATTCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGTTGTAACCCCG  >  KT2440/541842‑542108
                                                                                                                                      |                                                                                                                                    
ttCTCCAACGAAGTCGTTGGTGGTGTGATTCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGAc                                                                                                                                      >  4:114297/1‑135 (MQ=255)
        cGAAGTCGTTGGTGGTGTGATTCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTa                                                                                                                              >  4:95003/1‑135 (MQ=255)
                   gtggtgTGATTCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTc                                                                                                                    <  3:114297/134‑1 (MQ=255)
                          gATTCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCaa                                                                                                            >  4:210208/1‑135 (MQ=255)
                            ttCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACg                                                                                                          <  7:208164/135‑1 (MQ=255)
                              ccTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGa                                                                                                         >  1:7305/1‑134 (MQ=255)
                                    gAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGATGGTTCGTACCACGACGTCGACTCCAACGAAATGGCg                                                                                                  >  5:6449/1‑135 (MQ=255)
                                    gAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGATGGTTCGTACCACGACGTCGACTCCAACGAAATGGCg                                                                                                  >  7:59187/1‑135 (MQ=255)
                                    gAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCg                                                                                                  >  4:222993/1‑135 (MQ=255)
                                          aTCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGtt                                                                                                >  3:214406/1‑131 (MQ=255)
                                                  gATCCAGAAGGGTATCGAAGAGCAGATGAAAAACTGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCgctgc                                                                                    >  5:109185/1‑135 (MQ=255)
                                                  gATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACCTCGACTCCAACGAAATGGCGTTCAAGATCgctgc                                                                                    >  7:282865/1‑135 (MQ=255)
                                                    tCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCtt                                                                                  >  2:113641/1‑135 (MQ=255)
                                                       aGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGa                                                                               >  1:67284/1‑135 (MQ=255)
                                                       aGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGa                                                                               >  8:92632/1‑135 (MQ=255)
                                                         aaGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATg                                                                             >  5:285697/1‑135 (MQ=255)
                                                            ggTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCg                                                                          >  6:203043/1‑135 (MQ=255)
                                                                 cGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCaa                                                                     >  4:110423/1‑135 (MQ=255)
                                                                 cGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCaa                                                                     >  7:77268/1‑135 (MQ=255)
                                                                   aactgaagaagaAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATCGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGc                                                                   <  7:238968/129‑1 (MQ=255)
                                                                   aaGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAg                                                                    >  1:249805/1‑134 (MQ=255)
                                                                      agCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGAt                                                                                          <  5:112237/109‑1 (MQ=255)
                                                                      agCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGAt                                                                                          >  6:112237/1‑109 (MQ=255)
                                                                           aTGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGcc                                                           >  3:206965/1‑135 (MQ=255)
                                                                           aTGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGc                                                            >  8:38666/1‑134 (MQ=255)
                                                                           aTGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGc                                                            >  6:92436/1‑134 (MQ=255)
                                                                                     gCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGc                                                                   <  3:40090/117‑1 (MQ=255)
                                                                                     gCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGc                                                                   >  4:40090/1‑117 (MQ=255)
                                                                                         tgttgCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGATGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTgg                                             <  6:6449/135‑1 (MQ=255)
                                                                                         tgttgCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGATGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTgg                                             <  8:59187/135‑1 (MQ=255)
                                                                                                        tctGTTCGGCCGCAAGGCGGCGTTATTCGACGGTTCGAACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGcc                              <  2:287182/135‑1 (MQ=255)
                                                                                                             tCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCa                         >  6:57748/1‑135 (MQ=255)
                                                                                                               ggCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAGATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCAt                        >  3:127540/1‑134 (MQ=255)
                                                                                                               ggCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCAt                        >  1:232541/1‑134 (MQ=255)
                                                                                                               ggCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCAt                        >  3:66812/1‑134 (MQ=255)
                                                                                                               ggCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTATGGAGCCGATCAt                        >  1:287182/1‑134 (MQ=255)
                                                                                                                      aGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGt                  <  3:210208/133‑1 (MQ=255)
                                                                                                                          cgcgGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGt            <  4:66812/135‑1 (MQ=255)
                                                                                                                          cgcgGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGt            <  4:206965/135‑1 (MQ=255)
                                                                                                                             ggTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGt            <  5:55757/132‑1 (MQ=255)
                                                                                                                             ggTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGt            >  6:55757/1‑132 (MQ=255)
                                                                                                                             ggTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCGCGAGCCGCTCATGAAAGTCGAAGTTg          >  4:29234/1‑134 (MQ=255)
                                                                                                                                   cGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGTTGTAAccc    <  4:214406/134‑1 (MQ=255)
                                                                                                                                    gACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGTTGTAACCCCg  <  1:166818/135‑1 (MQ=255)
                                                                                                                                     aCGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGAt                                                                              >  4:30641/1‑58 (MQ=255)
                                                                                                                                     aCGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGAt                                                                              <  3:30641/58‑1 (MQ=255)
                                                                                                                                     aCGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGTTGTAACCCCg  <  3:222993/134‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                    
TTCTCCAACGAAGTCGTTGGTGGTGTGATTCCTAAGGAATACATCCCTGCGATCCAGAAGGGTATCGAAGAGCAGATGAAAAACGGCGTTGTTGCCGGTTATCCTCTGATCGGCCTGAAGGCCGCGGTATTCGACGGTTCGTACCACGACGTCGACTCCAACGAAATGGCGTTCAAGATCGCTGCTTCGATGGCGACCAAGCAACTGGCCCAGAAGGGCGGTGGCGTGGTTCTCGAGCCGATCATGAAAGTCGAAGTTGTAACCCCG  >  KT2440/541842‑542108

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑