Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 87,881 A→G 12.7% intergenic (+33/‑147) ilvH → / → cra acetolactate synthase 3, small subunit, valine‑sensitive/transcriptional repressor‑activator for carbon metabolism

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091387,8810AG12.7% 148.1 / 8.8 54intergenic (+33/‑147)ilvH/craacetolactate synthase 3, small subunit, valine‑sensitive/transcriptional repressor‑activator for carbon metabolism
Reads supporting (aligned to +/- strand):  ref base A (24/23);  new base G (4/3);  total (28/26)
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

CCAGCGGTAAGCTTGATGCATTTTTAGCATCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAGGGGCAATTGT  >  NC_000913/87736‑88029
                                                                                                                                                 |                                                                                                                                                    
ccAGCGGTAAGCTTGATGCATTTTTAGCATCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGt                                                                                                                                                   >  2:27040/1‑149 (MQ=255)
           cTTGATGCATTTTTAGCATCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACGTGACATGTTGGGCt                                                                                                                                        <  4:9886/149‑1 (MQ=255)
                 gCATTTTTAGCATCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCttttttt                                                                                                                                  >  3:341692/1‑149 (MQ=255)
                          gCATCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGATCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCa                                                                                                                         >  4:96397/1‑149 (MQ=255)
                            aTCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCtttttt                                                                                                                                   >  2:54129/1‑137 (MQ=255)
                            aTCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCtttttt                                                                                                                                   <  1:54129/137‑1 (MQ=255)
                            aTCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGt                                                                                                                       >  4:417584/1‑149 (MQ=255)
                            aTCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGATCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGt                                                                                                                       <  3:96397/149‑1 (MQ=255)
                                     cgATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTg                                                                                                              <  1:15378/149‑1 (MQ=255)
                                        tgtgGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGaa                                                                                                           <  3:269469/149‑1 (MQ=255)
                                                aaaTTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCa                                                                                                   <  2:225667/149‑1 (MQ=255)
                                                 aaTTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAg                                                                                                  <  3:114613/149‑1 (MQ=255)
                                                       ggAGGTTGCTCACTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGCATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTATTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCg                                                                                            >  1:388009/1‑149 (MQ=255)
                                                          ggTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTg                                                                                                                      <  2:50826/120‑1 (MQ=255)
                                                          ggTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTg                                                                                                                      >  1:50826/1‑120 (MQ=255)
                                                                tcgctcTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAAtt                                                                                   >  2:116729/1‑149 (MQ=255)
                                                                   ctctGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTc                                                                                <  4:433547/149‑1 (MQ=255)
                                                                     ctGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTgg                                                                                                                     >  3:347550/1‑110 (MQ=255)
                                                                     ctGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTgg                                                                                                                     <  4:347550/110‑1 (MQ=255)
                                                                        gtgtGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTgcgc                                                                           >  3:24534/1‑149 (MQ=255)
                                                                         tgtgGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCt                                                                          >  3:411414/1‑149 (MQ=255)
                                                                          gtgGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCtt                                                                         <  4:24534/149‑1 (MQ=255)
                                                                          gtagTCGGACTTTCGCGCGGCGATAGAATAATGCGTTGAGAATGATCTCAACGCGCAATTTACAGCCCAACGTGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGTAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCtt                                                                         >  4:296733/4‑149 (MQ=255)
                                                                             gTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATg                                                                                                                                                    >  4:380376/1‑71 (MQ=255)
                                                                             gTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATg                                                                                                                                                    <  3:380376/71‑1 (MQ=255)
                                                                             gTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGa                                                                      >  1:240210/1‑149 (MQ=255)
                                                                              tCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGAt                                                                     >  1:23574/1‑149 (MQ=255)
                                                                                 gACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGtt                                                                  >  1:476784/1‑149 (MQ=255)
                                                                                    tttCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAAt                                                               >  2:23061/1‑149 (MQ=255)
                                                                                       cgcgcgGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGaa                                                            <  2:476784/149‑1 (MQ=255)
                                                                                       cgcgcgGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGaa                                                            <  3:417584/149‑1 (MQ=255)
                                                                                        gcgcgGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAAt                                                           <  2:240210/149‑1 (MQ=255)
                                                                                             gcgATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAAc                                                      <  2:232398/149‑1 (MQ=255)
                                                                                              cgATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCt                                                                               <  3:139352/123‑1 (MQ=255)
                                                                                              cgATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCt                                                                               >  4:139352/1‑123 (MQ=255)
                                                                                                 tAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTaa                                                                <  1:328396/135‑1 (MQ=255)
                                                                                                 tAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTaa                                                                >  2:328396/1‑135 (MQ=255)
                                                                                                          gCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACa                                         <  3:337718/149‑1 (MQ=255)
                                                                                                                  aaTGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATg                                      <  1:170464/144‑1 (MQ=255)
                                                                                                                  aaTGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATg                                      >  2:170464/1‑144 (MQ=255)
                                                                                                                      aTCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTCTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGtt                             >  3:273604/1‑149 (MQ=255)
                                                                                                                       tctcAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGttt                            >  2:161549/1‑149 (MQ=255)
                                                                                                                              gcgcAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACAtt                     >  4:350276/1‑149 (MQ=255)
                                                                                                                                  aaTTTACAACCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTAc                 <  2:388009/149‑1 (MQ=255)
                                                                                                                                   aaaaaaaGCCCAACGTGACATGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTAt                                 <  2:98182/126‑1 (MQ=255)
                                                                                                                                   aaaaaaaGCCCAACGTGACATGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTAt                                 >  1:98182/7‑132 (MQ=255)
                                                                                                                                   aTTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCa                                              >  2:21154/1‑119 (MQ=255)
                                                                                                                                   aTTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCa                                              <  1:21154/119‑1 (MQ=255)
                                                                                                                                       aaaGCCCAACGTGACATGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAAc                                                      >  3:204372/3‑107 (MQ=255)
                                                                                                                                       aaaGCCCAACGTGACATGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAAc                                                      <  4:204372/105‑1 (MQ=255)
                                                                                                                                         aGCCCAACGTGACATGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAggg          >  1:306063/1‑149 (MQ=255)
                                                                                                                                           cccAACATGTCACGTTGGGCTTTTCTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAGGGGc        <  2:23574/149‑1 (MQ=255)
                                                                                                                                             cAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCACTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAGGGGCaa      >  4:275971/1‑149 (MQ=255)
                                                                                                                                               aCATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAGGGGCAAtt    <  1:116729/149‑1 (MQ=255)
                                                                                                                                                 aTGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAGGGGCAATtgt  <  1:320391/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                    
CCAGCGGTAAGCTTGATGCATTTTTAGCATCGATTCGCGATGTGGCGAAAATTGTGGAGGTTGCTCGCTCTGGTGTGGTCGGACTTTCGCGCGGCGATAAAATAATGCGTTGAGAATGATCTCAATGCGCAATTTACAGCCCAACATGTCACGTTGGGCTTTTTTTGCGAAATCAGTGGGAACCTGGAATAAAAGCAGTTGCCGCAGTTAATTTTCTGCGCTTAGATGTTAATGAATTTAACCCATACCAGTACAATGGCTATGGTTTTTACATTTTACGCAAGGGGCAATTGT  >  NC_000913/87736‑88029

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑