Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,115,428 T→C T1229A (ACC→GCC)  yghJ ← putative lipoprotein YghJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,115,4280TC98.0% 168.1 / ‑4.2 50T1229A (ACC→GCC) yghJputative lipoprotein YghJ
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base C (29/20);  total (30/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.68e-01

ATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGTATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGATCG  >  NC_000913/3115291‑3115555
                                                                                                                                         |                                                                                                                               
aTGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATGGAGCTGGCAAAGGCAt                                                                                                                               >  2:967339/1‑140 (MQ=255)
   cgcATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAGCAGCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTAGCAAAGGCATCCa                                                                                                                            <  2:975138/140‑1 (MQ=255)
     cATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGGTTTTATAGGTAAAAATACGGTGCTTAACGTCCTCGCTATCACGGCCGTAGAAGTCATTCCTCGAGCTGGCAAAGGCAACCAGa                                                                                                                          >  2:233435/1‑140 (MQ=255)
           cGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTa                                                                                                                    <  2:265334/140‑1 (MQ=255)
                  gaTCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAAtt                                                                                                             >  1:470955/1‑140 (MQ=255)
                   aTCTGCACATCGTTGGTG‑AACGATGTTTCTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGc                                                                                                           <  2:889607/140‑1 (MQ=255)
                     cTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCt                                                                                                          >  2:716451/1‑140 (MQ=255)
                      tGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTc                                                                                                         <  2:802669/140‑1 (MQ=255)
                        cacaTCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCa                                                                                                       >  2:649111/1‑140 (MQ=255)
                        cacaTCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCa                                                                                                       >  1:562500/1‑140 (MQ=255)
                        cacaTCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCa                                                                                                       <  2:893873/140‑1 (MQ=255)
                        cacaTCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCa                                                                                                       <  1:100652/140‑1 (MQ=255)
                        cacaTCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCa                                                                                                       >  1:914803/1‑140 (MQ=255)
                          caTCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGt                                                                                                     >  2:828786/1‑140 (MQ=255)
                            tCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGGAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTcc                                                                                                   >  2:1036094/1‑140 (MQ=255)
                              gTTGGTGAAACGCTGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGc                                                                                                 <  2:260174/140‑1 (MQ=255)
                              gTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGc                                                                                                 <  2:185220/140‑1 (MQ=255)
                              gTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGc                                                                                                 <  1:649111/140‑1 (MQ=255)
                               ttGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGcc                                                                                                >  2:869813/1‑140 (MQ=255)
                                  gTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAgt                                                                                             >  1:693840/1‑140 (MQ=255)
                                       aCGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAAt                                                                                        >  2:1039719/1‑140 (MQ=255)
                                             tttGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTgg                                                                                  <  2:562500/140‑1 (MQ=255)
                                               tgtgGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCa                                                                                >  2:587221/1‑140 (MQ=255)
                                                 tgGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCAtt                                                                              <  1:587221/140‑1 (MQ=255)
                                                             tttttATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGttcttctt                                                                  <  1:476516/140‑1 (MQ=255)
                                                             tttttATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGttcttctt                                                                  <  1:869813/140‑1 (MQ=255)
                                                             tttttATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGttcttctt                                                                  <  1:967339/140‑1 (MQ=255)
                                                             tttttATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGttcttctt                                                                  <  2:259748/140‑1 (MQ=255)
                                                                  ataGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGgtg                                                             <  1:1039719/140‑1 (MQ=255)
                                                                      gTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGt                                                         >  1:214471/1‑140 (MQ=255)
                                                                                ggTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGaaa                                               >  1:43600/1‑140 (MQ=255)
                                                                                          gTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGAtt                                     <  2:693840/140‑1 (MQ=255)
                                                                                              tCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTc                                          >  1:680264/1‑131 (MQ=255)
                                                                                              tCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTc                                          <  2:680264/131‑1 (MQ=255)
                                                                                              tCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAg                                 >  2:1076157/1‑140 (MQ=255)
                                                                                                     cACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCAccc                          >  2:7349/1‑140 (MQ=255)
                                                                                                       cGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAg                        >  1:1016703/1‑140 (MQ=255)
                                                                                                       cGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAg                        <  1:716451/140‑1 (MQ=255)
                                                                                                              agaagaCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGcc                 >  1:422879/1‑140 (MQ=255)
                                                                                                              aGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAg                   <  1:132048/138‑1 (MQ=255)
                                                                                                              aGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAg                   >  2:132048/1‑138 (MQ=255)
                                                                                                              aGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGcc                 >  1:216252/1‑140 (MQ=255)
                                                                                                              aGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGcc                 >  1:56411/1‑140 (MQ=255)
                                                                                                              aGAAGTCATTCATCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGcc                 >  2:395465/1‑140 (MQ=255)
                                                                                                                    cattcatCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAg           >  2:189594/1‑140 (MQ=255)
                                                                                                                    cattcatCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAg           >  1:761821/1‑140 (MQ=255)
                                                                                                                     attcatCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGt          >  1:822506/1‑140 (MQ=255)
                                                                                                                          tCGAGCTGGCAAAGGTATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGa     >  2:35238/1‑140 (MQ=255)
                                                                                                                          tCGAGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGa     >  2:639569/1‑140 (MQ=255)
                                                                                                                             aGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGATCg  >  2:317835/1‑140 (MQ=255)
                                                                                                                             aGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGATCg  >  2:311152/1‑140 (MQ=255)
                                                                                                                             aGCTGGCAAAGGCATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGATCg  >  2:198318/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                               
ATGCGCATCACCGATGGAGATCTGCACATCGTTGGTGAAACGATGTTTGTGGCCCGGCAAGTTTTTATAGGTAAACATCCGGTGCTTACCGTCTTCGCTATCACGGCCGTAGAAGTCATTCATCGAGCTGGCAAAGGTATCCAGATCGTTAGCGAATTGCTCCAGTCCGCCAGTGTAATTGCTGGCATTCAGGTTCTTCTTCGGTGTGGTATAGACGAAAGCGTCTGATTCCAGCTCACCCAGCGGAGCCGGTGAGTTCAGATCG  >  NC_000913/3115291‑3115555

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑