Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,717,405 C→T 7.4% T35I (ACC→ATC)  PP_5020 → methyl‑accepting chemotaxis protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,717,4050CT 7.4% 158.0 / 2.3 54T35I (ACC→ATC) PP_5020methyl‑accepting chemotaxis protein
Reads supporting (aligned to +/- strand):  ref base C (22/28);  new base T (2/2);  total (24/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AACAATACAATTATTTGTGCTGCCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGATCGCCGCCGCGACGACGCTTCGCTGGCAGAACTGG  >  NC_002947/5717258‑5717548
                                                                                                                                                   |                                                                                                                                               
aacaaTACAATTATTTGTGCTGCCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGAcc                                                                                                                                                >  6:78791/1‑149 (MQ=255)
        aatTATTTGTGCTGCCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTggga                                                                                                                                        >  1:125151/1‑147 (MQ=255)
        aatTATTTGTGCTGCCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCa                                                                                                                                        >  8:52052/1‑149 (MQ=255)
                 tgctgcCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGa                                                                                                                               <  4:242943/149‑1 (MQ=255)
                   ctgcCAAGCCGCCGGGGTTTCGAACATTTATCAATGGTTAGGGCAATCGCTTGGCAATGTGAGCGTAAATCGCAAACTTGGGCTGGGGTTCGGCCTGGTGCTTGTGTTGACCTTGGGGATTACCCTGACCGGCTGGCACGGCATGGAc                                                                                                                              <  4:234827/148‑1 (MQ=255)
                   ctgcCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTTACCGGCTGGCACGGCATGGACa                                                                                                                             <  7:52052/149‑1 (MQ=255)
                   ctgcCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACa                                                                                                                             <  2:35623/149‑1 (MQ=255)
                     gcCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAg                                                                                                                            >  4:321134/1‑148 (MQ=255)
                      ccAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGca                                                                                                                          <  7:296551/149‑1 (MQ=255)
                        aaGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGcatc                                                                                                                        <  5:204299/149‑1 (MQ=255)
                         aGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGcatca                                                                                                                       <  4:19580/149‑1 (MQ=255)
                             gccgGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGa                                                                                                                   <  3:321134/149‑1 (MQ=255)
                                ggggAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCg                                                                                                                >  5:29364/1‑149 (MQ=255)
                                  ggAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTg                                                                                                              <  6:29364/149‑1 (MQ=255)
                                    aGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGGACGGCATGGACAGCATCATCGACCGTGGc                                                                                                            <  2:125151/149‑1 (MQ=255)
                                        gAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGAc                                                                                                         >  6:342058/1‑148 (MQ=255)
                                                 tCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTg                                                                                                              >  7:37840/1‑134 (MQ=255)
                                                 tCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTg                                                                                                              <  8:32490/134‑1 (MQ=255)
                                                 tCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTg                                                                                                              <  8:37840/134‑1 (MQ=255)
                                                 tCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTg                                                                                                              >  7:32490/1‑134 (MQ=255)
                                                  cAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGaaa                                                                                              >  1:139291/1‑149 (MQ=255)
                                                   aaTGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAAc                                                                                             <  6:332137/149‑1 (MQ=255)
                                                       gTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACAtct                                                                                         >  3:299401/1‑149 (MQ=255)
                                                        ttAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACAtct                                                                                         <  5:342058/148‑1 (MQ=255)
                                                          atctcAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGATCGGCTGGCACAGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCgg                                                                                      <  3:207184/145‑1 (MQ=255)
                                                           gCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGt                                                                                     >  4:156749/1‑149 (MQ=255)
                                                            cccAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGa                                                                                                                   >  4:182560/1‑118 (MQ=255)
                                                            cccAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGa                                                                                                                   <  3:182560/118‑1 (MQ=255)
                                                              cAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCg                                                                                       <  7:211253/144‑1 (MQ=255)
                                                              cAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCg                                                                                       >  8:211253/1‑144 (MQ=255)
                                                               aaTCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGAGCTTGGCGATTACCCTGATCGGCTGGCACCGCATGGACAGCATCATCGAGCGTGGCGGCATCCTGGGAAACATCTCGGtagat                                                                                 >  4:207184/1‑145 (MQ=255)
                                                               aaTCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATc                                                                                 <  3:156749/149‑1 (MQ=255)
                                                               aaTCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATc                                                                                 <  5:78791/149‑1 (MQ=255)
                                                               aaTCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCGTCTGTTGCCCTTGGCGATTACCCTGATCGGCGGGCACAGCATGGACAGCATCTTCGACGGTGGCGCCAAACTGGGGAACATCTCGGtagag                                                                                 >  4:211564/1‑145 (MQ=255)
                                                               aaTCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCGGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGATCGGCTGGCACAGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCgg                                                                                      <  3:211564/144‑1 (MQ=255)
                                                                       ggCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCaa                                                                           <  5:1508/147‑1 (MQ=255)
                                                                              tgAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCa                                                                   <  5:66374/148‑1 (MQ=255)
                                                                                        tCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCa                                                        >  8:37576/1‑149 (MQ=255)
                                                                                         cGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCgg                                                                                      <  4:33216/118‑1 (MQ=255)
                                                                                         cGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCgg                                                                                      >  3:33216/1‑118 (MQ=255)
                                                                                          gCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATc                                                      <  7:37576/149‑1 (MQ=255)
                                                                                           cAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTgg                                                                                                             <  2:318245/93‑1 (MQ=255)
                                                                                           cAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTgg                                                                                                             >  1:318245/1‑93 (MQ=255)
                                                                                           cAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTgcg                                                          <  5:234521/144‑1 (MQ=255)
                                                                                           cAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTgcg                                                          >  6:234521/1‑144 (MQ=255)
                                                                                                     cTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCcag                                             >  1:240973/1‑147 (MQ=255)
                                                                                                         gTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAg                                                                  >  2:172837/1‑122 (MQ=255)
                                                                                                         gTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAg                                                                  <  1:172837/122‑1 (MQ=255)
                                                                                                                    gTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGAt                                    <  3:231380/141‑1 (MQ=255)
                                                                                                                    gTGCTTCTGTTGACCTTGGCGATTACACTGACCGGCTCGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGAt                                    >  4:231380/1‑141 (MQ=255)
                                                                                                                          cTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGATCGCCGCCGcgacga                      >  3:239924/1‑149 (MQ=255)
                                                                                                                             ttGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGt                                         <  2:171988/127‑1 (MQ=255)
                                                                                                                             ttGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGt                                         >  1:171988/1‑127 (MQ=255)
                                                                                                                                      gCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGATCGCCGCCGCGACGACGCTTCGCTgg           >  2:239060/1‑148 (MQ=255)
                                                                                                                                              ccTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGATCGCCGCCGCGACGACGCTTCGCTGGCAGAACTgg  <  4:299401/149‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                               
AACAATACAATTATTTGTGCTGCCAAGCCGCCGGGGAGTCGAACATGTATCAATGGTTAGCCCAATCGCTGGGCAATGTGAGCGTCAATCGCAAACTGGGGCTGGGTTTCGGCCTGGTGCTTCTGTTGACCTTGGCGATTACCCTGACCGGCTGGCACGGCATGGACAGCATCATCGACCGTGGCGACAAACTGGGAAACATCTCGGTTATCCAGCAATACACCCAGGAATTGCGCATCGCCCGCCAGCAGTACGATCGCCGCCGCGACGACGCTTCGCTGGCAGAACTGG  >  NC_002947/5717258‑5717548

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: ‑