Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 4,690,862 T→G 41.6% L281R (CTG→CGG)  yhaJ_2 → HTH‑type transcriptional regulator YhaJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24404,690,8620TG41.6% 13.0 / 9.6 48L281R (CTG→CGG) yhaJ_2HTH‑type transcriptional regulator YhaJ
Reads supporting (aligned to +/- strand):  ref base T (13/12);  new base G (5/16);  total (20/28)
Fisher's exact test for biased strand distribution p-value = 7.16e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

GGGCCTACCTGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCTTTGGGCTG  >  KT2440/4690727‑4690979
                                                                                                                                       |                                                                                                                      
gggcCTACCTGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCCTTGGGCCt                                                                                                                        >  7:405828/1‑136 (MQ=255)
    cTACCTGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGGTGGGCCTggg                                                                                                                     >  3:386596/1‑135 (MQ=255)
    cTACCAGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACAACATCTCGATCAAGTCGCGCCCCATGGGGCAggg                                                                                                                     >  6:21947/1‑135 (MQ=255)
     tACCTGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGGTggggcggggc                                                                                                                    >  1:62903/1‑135 (MQ=255)
         tGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGGTGGGGCGGGgcgcgc                                                                                                                >  1:107909/1‑135 (MQ=255)
         tGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGGTGGGCCTGGGcgcgcg                                                                                                               >  8:41232/1‑136 (MQ=255)
          gCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGGCTGGGCGCGCGa                                                                                                              >  7:311007/1‑136 (MQ=255)
          gCCGCAGCCATTGGGCCAACCCCTGATTGCCGCGGGCGAACGGCCCGTGGTGCGCTGCGACAACAGGGCCAACCGCCTGCGCTTGTGGGGAGACATCATCTGGAACAAGTCGCGCCCGTTGGGCCTGGGcgcgcg                                                                                                               <  6:96511/135‑1 (MQ=255)
              cAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCGGGGCGCGCGCCg                                                                                                            >  1:242276/1‑134 (MQ=255)
               aGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGCCGC‑t                                                                                                         >  6:401705/1‑135 (MQ=255)
               aGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑t                                                                                                         >  4:404915/1‑135 (MQ=255)
               aGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCCTTGGGCCTGGGAGCGcgccgcg                                                                                                          >  5:231062/1‑134 (MQ=255)
                  cATTGGGCTAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACAGGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGGCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TAcc                                                                                                      <  1:11516/135‑1 (MQ=255)
                       tgcGAACCGCTGATGGCCTGGGGGGCACTGGCCGTGGTGGGATTCTAAAACTGGCCCAACCGCCTGCGCTTGTGGGTATACATCATCTGTATCAAGTCCCGCCCGTTGGGCGGGGGCGCGCGACGC‑TACCTGGa                                                                                                  <  6:416329/132‑1 (MQ=255)
                              cGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGGCCGGTGGGCCTGGGCGCGCGCCGC‑GACCGGGGAGTCATgc                                                                                          >  1:291270/1‑135 (MQ=255)
                              cGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCGGGGCGCGCGCCGC‑GACCAGGAAGtactgc                                                                                          >  5:152412/1‑130 (MQ=255)
                                ctttttGCCTCGGGCGCACTGGCCTAGGTGCGCTTCGAAAACTTGGCCAACCGCCGGCGCTTGTGGGTAAACATCCTCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATgcgc                                                                                        <  3:226655/131‑1 (MQ=255)
                                cTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATgcgc                                                                                        <  3:404915/135‑1 (MQ=255)
                                     tGCCGCGGGCGCACTGGCCGTGGGGCGCTTCGAAAACATGGCCAACCGCCTGCGCTTGTGGGTACACAACATCTGGATCAAGGCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGc                                                                                    <  4:413776/134‑1 (MQ=255)
                                             gcgaACGGGCCGCGGTGCGCTTCCAAAACAGGCCCACCCGCCGGCGATTGTGGGTCGAATTAATGTGCATCAAGGCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGaa                                                                          <  7:272557/136‑1 (MQ=255)
                                              cgcACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGGCCGGTGGGCCGGGGCGGGCGGCGC‑GACCGGGGAGTCAAGCGCCCCCTGTTGGAGaa                                                                          >  2:178967/1‑135 (MQ=255)
                                                   tGGCCGAGGTGCGCTTCTACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGcc                                                                    <  7:76871/136‑1 (MQ=255)
                                                       cgtgtggcgcTGCCACAACTTGGCCACCCGCGGGCGGGTGTGGGTAGACTCCATCTGCAGCAAGTCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGcccccc                                                                <  8:95140/130‑1 (MQ=255)
                                                       cgtggTGCGCTTCGACAACCTGGCCACCCGCCTGGGCTTGTGGGTAGACCTCATCTGGAGCACGCCGCGCCGGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGcccccc                                                                <  7:41232/133‑1 (MQ=255)
                                                       cggggTGCGCGTCGACAACTTGCCCAACCGCCTGCGGTGGTGGGTACACAACATCTGGATCACGGCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGcccccc                                                                <  8:445999/133‑1 (MQ=255)
                                                          ggggcgcGTCGAAAACTGGGCAAACCGCCGGGGGTGGGGGGACGACATCATCTGGACCACGCCGCGCCGGTGGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAg                                                              <  3:410145/132‑1 (MQ=255)
                                                          ggTGCGCTTCGACAACATGGCCAACCCCCGGGGGTTGTGGGTAGAAAGCATGTGGATCATGCCGGGCCGGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAg                                                              <  3:419353/135‑1 (MQ=255)
                                                             gcgcTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCCCGCCCCGC‑TACCGGGCAGTCATGCGCCAGCTGTTCGAGGAGGAGCCCCCCCGGGc                                                           >  1:373164/1‑135 (MQ=255)
                                                              cgcTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCt                                                         <  8:336901/136‑1 (MQ=255)
                                                                cTTCGACAACATGCCCACCCGCGGGCGCTGGTGGGTAGACATCATCTGCATCACGGCGCGCCCGTGGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTg                                                        <  2:2046/135‑1 (MQ=255)
                                                                   cGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGata                                                     >  8:95715/1‑135 (MQ=255)
                                                                        cccggcccACCCGCCGGCGCTTGGGGGTACACATCAGCGGGCCCCCGGCGCGCCCGTGGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCtt                                               <  7:184121/130‑1 (MQ=255)
                                                                          aTGGCCACCCGCCTGCGATTGGGGGAAGACATCATCGGCAGCATGGCGCGCCGGTGGGGCCGGGGCGCGCGACGC‑TACCTGGAAGGCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTg                                              <  2:317704/135‑1 (MQ=255)
                                                                                acccGCCTGCGCTTGTGGGGAGACACCATCTGGAGCACGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGt                                       <  7:74577/134‑1 (MQ=255)
                                                                                aaCCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGCCGC‑GACCTGGAAGTCATGCGCCAGCTGGTCGAGCAGGAGCCCCCCCGGGCCGGATATCCCGTGCAcgcg                                        >  5:70211/1‑135 (MQ=255)
                                                                                           cTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGCCGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCCCGGCCCGATATCCCTTGCACGCGTCCACGcccag                             >  6:357912/1‑133 (MQ=255)
                                                                                           cTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCGGGGCGCGCGACCC‑GACCGGGAAGTCATGCGCCCGCGGTTCGAGAAGGCGCCCCCCCGGGCCGGATATCCCGTGCCCGCGGCccggcccggc                            >  7:200643/1‑136 (MQ=255)
                                                                                                 ggTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCAGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCACCAGTCGt                      >  8:358986/1‑136 (MQ=255)
                                                                                                      aCATCTTCTGGATCAAGCCGCGCCCGTGGGGCGGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGc                  <  1:25773/135‑1 (MQ=255)
                                                                                                      aCATCATGTGGAGCACGTCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGc                  <  3:134088/135‑1 (MQ=255)
                                                                                                      aCATCATCTGGATCACGGCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGc                  <  2:121837/135‑1 (MQ=255)
                                                                                                         tcatcTGGATCAAGTCGCGCCCGATTGGACTGGTCGCCCCACCCGCAACT‑GAATTGATGGGCCAGCGGATGGAGCACGAGCCCCCCCCGGCCTGATATACCTTGCACGCGGCCAGGCCCAGCAGGCCTTCGCCCa               >  2:261690/1‑135 (MQ=255)
                                                                                                         tcatcTGGACCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑GAACTGGTAGTGATTCGGCCCCTGGTCGAGAAGGCGCCCCCCCCGGGCGGATATACCATGCCCGCGGGCCCGCCCGGCAGGCGGTCGCCCac              >  8:411185/1‑135 (MQ=255)
                                                                                                              tGGAGCAAGTCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGccc           <  2:405949/134‑1 (MQ=255)
                                                                                                               ggATCAAGGCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCttt        <  7:117015/136‑1 (MQ=255)
                                                                                                                gATCACGTCGCGCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCttt        <  1:142638/135‑1 (MQ=255)
                                                                                                                gATCACGGCGCGCCCGTGGGGCCGGGGCGCGCGACGC‑TACCTGGAAGGCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCttt        <  2:242276/135‑1 (MQ=255)
                                                                                                                  ccccgccgcgCCCGTGGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCTTTgg      <  2:107909/129‑1 (MQ=255)
                                                                                                                      gccgcgCCGGTGGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCTTTGGGCtg  <  1:178967/133‑1 (MQ=255)
                                                                                                                      gccgcgCCCGTTGGGCCGGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCTTTGGGCtg  <  5:401705/133‑1 (MQ=255)
                                                                                                                                       |                                                                                                                      
GGGCCTACCTGCCGCAGCCATTGGTCGAACCGCTGATTGCCTCGGGCGCACTGGCCGAGGTGCGCTTCGACAACATGGCCAACCGCCTGCGCTTGTGGGTAGACATCATCTGGATCAAGTCGCGCCCGTTGGGCCTGGGCGCGCGACGC‑TACCTGGAAGTCATGCGCCAGCTGTTCGAGAAGGAGCCCCCCAGGGCCTGATATCCCTTGCACGCGTCCAGGCCCTGCAGGCGTTCGCCCAGCCCTTTGGGCTG  >  KT2440/4690727‑4690979

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑