Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,488,991 A→G 8.8% intergenic (+344/+227) PP_3981 → / ← PP_3982 transposase/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,488,9910AG 8.8% 150.1 / 5.3 57intergenic (+344/+227)PP_3981/PP_3982transposase/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (24/28);  new base G (2/3);  total (26/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.14e-01

AAGATGCCCAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGGTAACGAGTTTCACCACC  >  NC_002947/4488844‑4489135
                                                                                                                                                   |                                                                                                                                                
aaGATGCCCAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGaa                                                                                                                                                  <  2:318461/148‑1 (MQ=255)
    tGCCCAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCTAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGTAGCTGAAGGATTAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTc                                                                                                                                              <  1:72356/148‑1 (MQ=255)
      cccAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTccc                                                                                                                                            <  3:193909/148‑1 (MQ=255)
       ccAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGc                                                                                                                                          >  3:342062/1‑149 (MQ=255)
        cAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGcc                                                                                                                                         <  4:56008/149‑1 (MQ=255)
         aaGGCTCGACATTGCGCCATGACGACTGGAAACAGCAGGTTGTCGAAAATCCACCGATCGCCAACATCAAGCATCGCGCCCACCGTGCAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAGGTTCCCGccc                                                                                                                                        <  2:153266/149‑1 (MQ=255)
           ggCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTAGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAGGTTCCCGcccgt                                                                                                                                      <  3:329330/149‑3 (MQ=255)
             cTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCatat                                                                                                                                    >  6:173689/1‑149 (MQ=255)
                gACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATgc                                                                                                                                  <  5:173689/148‑1 (MQ=255)
                 aCATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATgcgc                                                                                                                                <  4:169658/149‑1 (MQ=255)
                    ttGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTa                                                                                                                             <  8:40032/149‑1 (MQ=255)
                    ttGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTa                                                                                                                             <  5:293397/149‑1 (MQ=255)
                      gcgcCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTAc                                                                                                                            <  8:12949/148‑1 (MQ=255)
                           aTGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGTGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATa                                                                                                                      <  7:342755/149‑1 (MQ=255)
                               cgacTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATACAGGGCGTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAgcgc                                                                                                                  <  2:151558/149‑1 (MQ=255)
                                gacTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGcgcg                                                                                                                 >  7:290405/1‑149 (MQ=255)
                                     gAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAAt                                                                                                            >  7:60331/1‑149 (MQ=255)
                                      aaaaTGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATc                                                                                                           <  2:184614/149‑1 (MQ=255)
                                      aaaaTGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATc                                                                                                           <  4:342062/149‑1 (MQ=255)
                                            cAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTc                                                                                                      <  1:130705/148‑1 (MQ=255)
                                                   tCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGAc                                                                                                <  7:109609/147‑1 (MQ=255)
                                                   tCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGAc                                                                                                >  8:109609/1‑147 (MQ=255)
                                                     gAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTca                                                                                            <  8:60331/149‑1 (MQ=255)
                                                      aaaaTCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAAGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTACCGCCCATATgct                                                                                                                                 >  1:60720/1‑110 (MQ=255)
                                                                gATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTg                                                                                 <  1:319188/149‑1 (MQ=255)
                                                                 aTCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTgg                                                                                <  7:126684/149‑1 (MQ=255)
                                                                  tCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTg                                                                                 <  1:314351/147‑1 (MQ=255)
                                                                  tCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGCGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGc                                                                               <  5:206327/149‑1 (MQ=255)
                                                                     ccAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACATGGGCGGGAGGTTCCCGCCCGTGTgcaa                                                                                                                                <  6:249589/97‑3 (MQ=37)
                                                                     ccAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACATGGGCGGGAGGTTCCCGCCCGTGTgcaa                                                                                                                                >  5:249589/1‑95 (MQ=37)
                                                                               gCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTgg                                                                                >  5:140777/1‑135 (MQ=255)
                                                                               gCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTgg                                                                                <  6:140777/135‑1 (MQ=255)
                                                                                      gcCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAActca                                                           >  2:248451/1‑148 (MQ=255)
                                                                                        cctgCGTGGAGCTGTAGGATAAAGGGCTTATCTGAGGGCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAActc                                                            <  8:21246/143‑1 (MQ=255)
                                                                                        ccAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAActc                                                            >  7:21246/1‑146 (MQ=255)
                                                                                            cGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCACCATAg                                                     <  1:248451/149‑1 (MQ=255)
                                                                                               ggAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGt                                                   >  5:336032/1‑148 (MQ=255)
                                                                                                     gAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCt                                            >  6:220882/1‑149 (MQ=255)
                                                                                                      acggATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTa                                                                                                                             <  2:199241/65‑1 (MQ=255)
                                                                                                       aGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGa                                          >  7:151738/1‑149 (MQ=255)
                                                                                                         gATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACg                                        >  5:45919/1‑149 (MQ=255)
                                                                                                         gATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACg                                        >  7:168575/1‑149 (MQ=255)
                                                                                                             aaGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCt                                     <  5:220882/148‑1 (MQ=255)
                                                                                                                ggCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCca                                 >  5:212634/1‑149 (MQ=255)
                                                                                                                        tGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCa                            <  2:162403/146‑1 (MQ=255)
                                                                                                                        tGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCa                            >  1:162403/1‑146 (MQ=255)
                                                                                                                        tGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATa                         >  5:338740/1‑149 (MQ=255)
                                                                                                                        tGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCACACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATa                         >  6:143283/1‑149 (MQ=255)
                                                                                                                          aGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCaa                           <  8:290405/145‑1 (MQ=255)
                                                                                                                            gCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGa                     <  5:143283/149‑1 (MQ=255)
                                                                                                                              cttgcttgCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAgg                   >  4:360994/1‑149 (MQ=255)
                                                                                                                               ttgcttgcACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAgg                   >  3:82056/1‑148 (MQ=255)
                                                                                                                                   ttgcACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGGTAAc               >  5:345108/1‑148 (MQ=255)
                                                                                                                                       atatgggcgggAGGTTCCCGCCCGTATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGCCGCCTGCCACATCAATACCGAGGTAACGAGtt          >  5:273303/5‑149 (MQ=255)
                                                                                                                                          cgggcgggAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAACCTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGGTAACGAGTTTca       >  7:342909/1‑149 (MQ=255)
                                                                                                                                             gcgggAACCTCCCGCCCATATGCGCGTAATACATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTCATGTCTGACGCCTGCCACATCAATACCGAGGTAACCAGTTTcacca    >  1:88179/1‑149 (MQ=255)
                                                                                                                                              cgggAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGGTAACGAGTTTcaccac   <  6:336032/149‑1 (MQ=255)
                                                                                                                                               gggAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGGTAACGAGTTTCaccacc  >  2:221787/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                
AAGATGCCCAAGGCTCGACATTGCGCCATGACGACTGGAAAATGCAGGTTGTCGAAAATCCACCGATCGCCAAGATCAAGCATCGCGCCCAGCGTGGAGCTGAAGGATAAAGGGCTTATCTGAGGCCTTGCTTGCACACGGGCGGGAACCTCCCGCCCATATGCGCGTACTTCATAGCGCGACAATCCACTCCAAGACCTCACATCTCACTTGGCTGAACTGGGCCTAAAACTCTCCATAGGTGATGTCTGACGCCTGCCACATCAATACCGAGGTAACGAGTTTCACCACC  >  NC_002947/4488844‑4489135

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: ‑