Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,812,303 C→A 7.6% A39S (GCC→TCC) ‡ PP_1615 ← LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,812,3030CA 7.6% 166.1 / 4.0 53A39S (GCC→TCC) ‡PP_1615LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (27/22);  new base A (2/2);  total (29/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.47e-01

GCCAGGTCGCCCATGGCGCGCAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGCAATAATGTTTTGTCT  >  NC_002947/1812155‑1812450
                                                                                                                                                      |                                                                                                                                                   
gCCAGGTCGCCCATGGCGCGCAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGc                                                                                                                                                     <  5:276762/149‑1 (MQ=255)
         cccATGGCGCGCAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCg                                                                                                                                            >  1:220608/1‑149 (MQ=255)
                 gcgcAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGAtgt                                                                                                                                    <  2:220608/149‑1 (MQ=255)
                  cgcAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GCAGATCGCCCGGCTgg                                                                                                                                       <  8:91243/145‑2 (MQ=255)
                  cgcAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GCAGATCGCCCGGCTgg                                                                                                                                       >  7:91243/1‑144 (MQ=255)
                     aGCGCTTACTCACGGCCATCCTGCAAGCGTTGGCAATGA‑TGCAGGAAGGTCTCCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGa                                                                                                                                >  1:85878/1‑149 (MQ=255)
                       cgcTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGAt                                                                                                                               >  3:38987/1‑148 (MQ=255)
                        gcTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTATCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGa                                                                                                                             <  6:127770/149‑1 (MQ=255)
                         cTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAg                                                                                                                            <  1:331389/149‑1 (MQ=255)
                           tCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAgg                                                                                                                           >  2:23582/1‑148 (MQ=255)
                                aCGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAAc                                                                                                                       <  7:114526/147‑1 (MQ=255)
                                     cttCCTGC‑AGCATTGCCAACGCTTGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCGGGCTGATGTGCGATGAGGAAACCCCCAgg                                                                                                                >  7:225197/3‑149 (MQ=255)
                                          tGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGAt                                                                                                                               <  5:233277/129‑1 (MQ=255)
                                          tGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGAt                                                                                                                               >  6:233277/1‑129 (MQ=255)
                                           gCAAGCGTTCGCAATGC‑TGCAGGAAGCTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCCATACAGCAGGCGCGTTTGCAGGCCGTCCTCCAGACG‑GGCGATCTGCCGCCGGAAGTGCGATGAGCAAACCCCCAGGCGTTcg                                                                                                          >  6:68272/1‑149 (MQ=255)
                                            cAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GCAGATCGCCCGGCTgga                                                                                                                                      >  6:69662/1‑118 (MQ=255)
                                            cAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GCAGATCGCCCGGCTgga                                                                                                                                      <  5:69662/120‑3 (MQ=255)
                                                    ggCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCGTGGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTcggcggcgg                                                                                                   <  1:89646/148‑1 (MQ=255)
                                                       aaTGC‑TGCAGGAAGGTCTGCCCGGCTTCACTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGt                                                                                               >  3:151543/1‑148 (MQ=255)
                                                         tgc‑tgcAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGaa                                                                                            <  6:154058/149‑1 (MQ=255)
                                                             tgcAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTg                                                                                         >  5:96500/1‑149 (MQ=255)
                                                               cAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTgg                                                                                        <  6:96500/148‑1 (MQ=255)
                                                                 ggAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGGCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGccc                                                                                     <  4:38987/149‑1 (MQ=255)
                                                                       tCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGcc                                                                                      <  7:221265/142‑1 (MQ=255)
                                                                       tCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGcc                                                                                      >  8:221265/1‑142 (MQ=255)
                                                                                      tCAGGGTTACCCGGCGGGTGCTGCGATACACCAGGCGCGTTTGTAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAAt                                                                >  1:28455/1‑149 (MQ=255)
                                                                                         gggTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATtcg                                                             <  8:270687/149‑1 (MQ=255)
                                                                                          ggTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATtcgt                                                            <  1:23582/149‑1 (MQ=255)
                                                                                           gTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTgg                                                                                        >  5:204800/1‑120 (MQ=255)
                                                                                           gTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTgg                                                                                        <  6:204800/120‑1 (MQ=255)
                                                                                            ttACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATtcgtc                                                           >  1:151888/1‑148 (MQ=255)
                                                                                            ttACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATtcgtc                                                           >  2:229731/1‑148 (MQ=255)
                                                                                                ccGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAAccccc                                                                                                                   >  4:136501/1‑88 (MQ=255)
                                                                                                ccGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAAccccc                                                                                                                   <  3:136501/88‑1 (MQ=255)
                                                                                                 cggcggGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAGACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGcc                                                     >  7:212973/1‑149 (MQ=255)
                                                                                                   gcggGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCtt                                                   >  7:35332/1‑149 (MQ=255)
                                                                                                    cggGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGCGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTc                                                  <  4:127394/149‑1 (MQ=255)
                                                                                                     gggTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTcc                                                 <  2:151888/149‑1 (MQ=255)
                                                                                                           tgcGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCgg                                           >  6:177868/1‑149 (MQ=255)
                                                                                                           tgcGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCgg                                           >  5:132462/1‑149 (MQ=255)
                                                                                                             cGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGgc                                          <  1:229731/148‑1 (MQ=255)
                                                                                                                tACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCTGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGgctgc                                       >  5:23907/1‑148 (MQ=255)
                                                                                                                    gcagGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATc                                  >  4:105583/1‑149 (MQ=255)
                                                                                                                    gcagGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATc                                  >  8:33368/1‑149 (MQ=255)
                                                                                                                        gcgcGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGAt                               >  3:43559/1‑148 (MQ=255)
                                                                                                                             tttGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATccc                         >  3:71854/1‑149 (MQ=255)
                                                                                                                             tttGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATccc                         >  2:174994/1‑149 (MQ=255)
                                                                                                                                     cGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGc                 <  6:23907/149‑1 (MQ=255)
                                                                                                                                       gTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGCaa               <  4:43559/149‑1 (MQ=255)
                                                                                                                                            ccAGCCG‑GGCGATCTGCCGGCTGATGTGAGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTAACATCGTCTGCTCATCGAt                               >  6:321307/1‑128 (MQ=255)
                                                                                                                                             cAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGCAATAATGt         >  2:237474/1‑149 (MQ=255)
                                                                                                                                               gCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGCAATAATGttt       <  8:35332/149‑1 (MQ=255)
                                                                                                                                                ccG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGCAATAATGtttt      <  3:105583/149‑1 (MQ=255)
                                                                                                                                                     gCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAAGTGGCCCTATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCTTCGGCTGCTCATCGATTATCCCTGTGTGGCAATAATGTTTTGTCt  <  8:225197/149‑1 (MQ=255)
                                                                                                                                                      |                                                                                                                                                   
GCCAGGTCGCCCATGGCGCGCAGCGCTTCCTCACGGCCATCCTGCAAGCGTTGGCAATGC‑TGCAGGAAGGTCTGCCCGGCTTCGCTCAGGGTTACCCGGCGGGTGCTGCGATACAGCAGGCGCGTTTGCAGGCGGTCCTCCAGCCG‑GGCGATCTGCCGGCTGATGTGCGATGAGGAAACCCCCAGGCGTTCGGCGGCGGCAGTGAACTGGCCCGATTCGGCCACGGCGACAAATTCGTCGATGCCTTCCCATCGGCTGCTCATCGATTATCCCTGTGTGGCAATAATGTTTTGTCT  >  NC_002947/1812155‑1812450

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: ‑