Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,724,678 T→C 100% H50R (CAC→CGC)  U712_19200 ← SacPA operon antiterminator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,724,6780TC100.0% 196.2 / ‑6.6 60H50R (CAC→CGC) U712_19200SacPA operon antiterminator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (30/28);  minor base A (1/1);  total (31/29)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAAAGCGCGATATGAATGTGATCGCTCAGCGGCGCCGCGAGCTCCCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCAATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTAAACTTTTCATTCTCGTCGTGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGGTCATTTTTCTTTTTTTGAAAAGCGATTCCTGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTA  >  CP006881/3724543‑3724807
                                                                                                                                       |                                                                                                                                 
gAAAGCGCGATATGAATGTGATCGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCa                                                                                                                                <  2:49342/139‑1 (MQ=255)
        gATATGAATGTGATCGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAg                                                                                                                        <  8:74198/139‑1 (MQ=255)
               aTGTGAGCGCTCCGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCtttt                                                                                                                 <  1:127985/139‑1 (MQ=255)
                    agcGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACt                                                                                                            <  6:98707/137‑1 (MQ=255)
                    aTCGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACt                                                                                                            >  1:227316/1‑139 (MQ=255)
                    aTCGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACt                                                                                                            >  3:87601/1‑139 (MQ=255)
                    aTCGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACt                                                                                                            >  3:50118/1‑139 (MQ=255)
                    aTCGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACt                                                                                                            <  3:26676/139‑1 (MQ=255)
                    aTCGCTCAACGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACt                                                                                                            >  2:207229/1‑139 (MQ=255)
                      cGCTCAGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCCCtt                                                                                                           >  4:243689/1‑138 (MQ=255)
                       gCTCAGCGGCGCCGCGAGCTCTACTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACttt                                                                                                          <  2:279016/138‑1 (MQ=255)
                        cTCAGCGGCGCCGCGAGCTCTCCTTCCGCATATCTGATGATATACTCAGCTATTTATATATGCTAATACGGCATTGTTTGCATGTTTTGTTTTAACTTTTAATTATCGTAGCGCACGCACAAGATATTTTACACatttt                                                                                                        >  2:230688/1‑137 (MQ=255)
                           aGCGGCGCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCa                                                                                                     <  2:227316/139‑1 (MQ=255)
                            gcggcgCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCAt                                                                                                    <  7:25520/139‑1 (MQ=255)
                             cggcgCCGCGAGCTCTCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATa                                                                                                   <  4:50118/139‑1 (MQ=255)
                                                               atatCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCAATTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCg                                                                  <  8:262260/138‑1 (MQ=255)
                                                                 atCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGCtt                                                               >  8:150044/1‑139 (MQ=255)
                                                                 atCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGAtt                                                               >  4:185533/1‑139 (MQ=255)
                                                                 atCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCAGTTTTCTTTTTTTGAAAAGCGCtt                                                               >  2:158252/1‑139 (MQ=255)
                                                                  tCCTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGACCTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTc                                                              >  5:195928/1‑139 (MQ=255)
                                                                   ccTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCTATTcc                                                             >  6:118749/1‑139 (MQ=255)
                                                                   ccTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTcc                                                             >  7:32942/1‑139 (MQ=255)
                                                                   ccTCAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTcc                                                             >  7:116704/1‑139 (MQ=255)
                                                                      cAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCgg                                                          >  8:11007/1‑139 (MQ=255)
                                                                      cAGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATC‑TTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGt                                                         >  8:277666/1‑139 (MQ=255)
                                                                       aGCTATTTCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCGGGt                                                         >  1:151924/1‑139 (MQ=255)
                                                                            tttCTATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCAt                                                    >  7:146943/1‑139 (MQ=255)
                                                                             ttCTATATGCTCCTACGGCAGTGTTTGCAGGATTTGTTTGCACTTTTCATTCTCGTCGAGCACGACAAAGATCTTTTCCACTTTATTAATATGGATGAGTTGATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCAt                                                    >  5:44206/1‑138 (MQ=255)
                                                                               ctatatGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATATTTTCCACTTTATTCATAGGGAGGAGATCATTTTTCTTTTTTTTAAAAGCGATTCCCGGTCCCATCa                                                  <  1:230688/136‑1 (MQ=255)
                                                                                 atatGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGa                                               >  3:156948/1‑139 (MQ=255)
                                                                                   atGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGAtt                                             >  5:296991/1‑139 (MQ=255)
                                                                                       tcctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGAtttttt                                         >  7:290073/1‑139 (MQ=255)
                                                                                        cctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTc                                        <  1:207229/139‑1 (MQ=255)
                                                                                         ctccGTCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGAATCCCGGTCCCATCACGAtttttt                                         <  1:93373/137‑1 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTGTTTTTTTGAAAAGCGATTCCCGGTCCCTTCACGATTTTTTcc                                       >  2:144069/1‑139 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGAtttttt                                         <  3:44305/137‑1 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       >  2:199159/1‑139 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       <  8:290073/139‑1 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       >  8:250731/1‑139 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       <  8:116704/139‑1 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       >  3:172191/1‑139 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       >  4:235435/1‑139 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       >  4:59863/1‑139 (MQ=255)
                                                                                         ctccGGCAGTGTTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTcc                                       >  1:46452/1‑139 (MQ=255)
                                                                                            cGGCCGTGTTTGCATGATTTGTTTTAACTTTTAATTCTCGTCGCGCACGACAAATATCTTTTACACTTTATTCATAGGTATTAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTg                                     <  4:171994/138‑1 (MQ=255)
                                                                                                 gtgtTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGatcatc                               <  8:146943/139‑1 (MQ=255)
                                                                                                  tgtTTGCAGGATTTGTTTGAACTTTTAATTCTCGTCGCGCACGACAAAGATCTTTTCAAATTTATTAAAAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGAATTTTTCCTGataaaa                               >  5:28824/1‑134 (MQ=255)
                                                                                                   gtTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGAtt                                             <  2:75824/123‑1 (MQ=255)
                                                                                                   gtTTGCAGGATTTGTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGAtt                                             >  1:75824/1‑123 (MQ=255)
                                                                                                                gTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAg                 <  7:11007/138‑1 (MQ=255)
                                                                                                                gTTTGAACTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAg                 <  6:248706/138‑1 (MQ=255)
                                                                                                                     aaCTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGTATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCAt           >  6:176378/1‑139 (MQ=255)
                                                                                                                     aaCTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCa            <  1:93609/138‑1 (MQ=255)
                                                                                                                      aCTTTTCATTCTCGTCGCGCACGACAAAGATC‑TTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCAttg         <  7:277666/139‑1 (MQ=255)
                                                                                                                       cTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCTCAttg         <  5:176378/139‑1 (MQ=255)
                                                                                                                       cTTTTCATTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCAttg         <  2:46452/139‑1 (MQ=255)
                                                                                                                             aTTCTCGTCTAGCACGATAAAGATCTTTTCCAATTTATTCATAGGTATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTgttgtt    <  6:28824/138‑1 (MQ=255)
                                                                                                                             aTTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTgttgtt    <  8:32942/138‑1 (MQ=255)
                                                                                                                             aTTCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGttt   <  3:185533/139‑1 (MQ=255)
                                                                                                                              ttCTCGTCGCGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGATCATTTTTCTTTTTTTGAAAAGCGATTCCCGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTa  <  6:6408/139‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                 
GAAAGCGCGATATGAATGTGATCGCTCAGCGGCGCCGCGAGCTCCCCTTCCGCATAGCTGATGATATCCTCAGCTATTTCAATATGCTCCTCCGGCAGTGTTTGCAGGATTTGTTTAAACTTTTCATTCTCGTCGTGCACGACAAAGATCTTTTCCACTTTATTCATAGGGATGAGGTCATTTTTCTTTTTTTGAAAAGCGATTCCTGGTCCCATCACGATTTTTTCCTGATCATCCTCTTTTATTAAAGCCGCATTGTTGTTTA  >  CP006881/3724543‑3724807

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑