Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,526,366	T→C	intergenic (‑217/‑103)	nudE ← / → igaA	ADP‑sugar diphosphatase NudE/inner membrane protein ‑ inhibits the Rcs signaling pathway

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,526,366	0	T	C	100.0%	207.9 / NA	59	intergenic (‑217/‑103)	nudE/igaA	ADP‑sugar diphosphatase NudE/inner membrane protein ‑ inhibits the Rcs signaling pathway
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/31);  total (28/31)

ACATTTATGTAACTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGATGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAGCACCATTGTGATTTTTTTAGCTGCTTTG  >  NC_000913/3526229‑3526501                                                                                                                                          |                                                                                                                                        aCATTTATGTAACTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGc                                                                                                                                       >  2:449518/1‑140 (MQ=255)     ttATGTAACTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCaa                                                                                                                                   >  2:793370/1‑140 (MQ=255)          tAACTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTaa                                                                                                                              >  2:236849/1‑140 (MQ=255)            aCTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAAc                                                                                                                            >  2:155275/1‑140 (MQ=255)             cTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTc                                                                                                                                     <  2:87461/130‑1 (MQ=255)             cTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTc                                                                                                                                     >  1:87461/1‑130 (MQ=255)             cTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACt                                                                                                                           >  2:894056/1‑140 (MQ=255)              ttAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTc                                                                                                                          <  2:222588/140‑1 (MQ=255)               taataaATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTcc                                                                                                                         >  1:559323/1‑140 (MQ=255)                aataaataATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGCAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTa                                                                                                                               <  2:860747/133‑1 (MQ=255)                aataaataATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTa                                                                                                                               >  1:860747/1‑133 (MQ=255)                        atCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAATTCCACGCTTGcc                                                                                                                >  2:606900/1‑140 (MQ=255)                        atCGTCCCCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGcc                                                                                                                >  1:114993/1‑140 (MQ=255)                            tCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCa                                                                                                                        <  1:872544/128‑1 (MQ=255)                            tCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCa                                                                                                                        >  2:872544/1‑128 (MQ=255)                               tcaaatcaaaTTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGcc                                                                                                         <  1:236849/140‑1 (MQ=255)                               tcaaatcaaaTTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGcc                                                                                                         <  1:449518/140‑1 (MQ=255)                               tcaaatcaaaTTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGcc                                                                                                         <  1:155275/140‑1 (MQ=255)                                caaatcaaatTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCa                                                                                                                        >  2:948507/1‑124 (MQ=255)                                caaatcaaatTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCa                                                                                                                        <  1:948507/124‑1 (MQ=255)                                caaatcaaatTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCa                                                                                                        >  1:111961/1‑140 (MQ=255)                                caaatcaaatTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCa                                                                                                        >  1:170996/1‑140 (MQ=255)                                  aatcaaatTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAAc                                                                                                      >  1:330954/1‑140 (MQ=255)                                        atTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCTGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGa                                                                                                >  2:517215/1‑140 (MQ=255)                                        atTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGa                                                                                                <  2:111961/140‑1 (MQ=255)                                        atTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGa                                                                                                <  2:114993/140‑1 (MQ=255)                                        atTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGa                                                                                                <  2:482797/140‑1 (MQ=255)                                        atTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGa                                                                                                <  2:330954/140‑1 (MQ=255)                                             aaGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAATTCCACGCTTGCCGATAGCCAACCGCAGAATCAt                                                                                           <  1:606900/140‑1 (MQ=255)                                                  aaTAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTAtt                                                                                      <  1:793370/140‑1 (MQ=255)                                                  aaTAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTAtt                                                                                      >  2:749237/1‑140 (MQ=255)                                                          gAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCgg                                                                              >  1:504721/1‑140 (MQ=255)                                                          gAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCgg                                                                              <  2:351127/140‑1 (MQ=255)                                                               aaCTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGa                                                                         <  2:618036/140‑1 (MQ=255)                                                                  tCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTg                                                                      >  1:522975/1‑140 (MQ=255)                                                                   ccAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGa                                                                     <  1:894056/140‑1 (MQ=255)                                                                    cAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGAc                                                                    <  2:579632/140‑1 (MQ=255)                                                                      ggAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGAc                                                                    >  1:689958/1‑138 (MQ=255)                                                                      ggAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGAc                                                                    <  2:689958/138‑1 (MQ=255)                                                                          tttGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGcc                                                              >  2:382459/1‑140 (MQ=255)                                                                            tGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTg                                                            <  1:601078/140‑1 (MQ=255)                                                                            tGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTg                                                            >  1:379411/1‑140 (MQ=255)                                                                             gCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGa                                                           <  2:600430/140‑1 (MQ=255)                                                                             gCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGa                                                           <  1:517215/140‑1 (MQ=255)                                                                             gCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGa                                                           <  2:823421/140‑1 (MQ=255)                                                                             gCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGa                                                           <  2:116909/140‑1 (MQ=255)                                                                             gCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGa                                                           <  2:504721/140‑1 (MQ=255)                                                                               tGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACa                                                         <  2:170996/140‑1 (MQ=255)                                                                                      ccGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACtaag                                                  >  2:167829/1‑140 (MQ=255)                                                                                           ttCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGa                                             <  2:531706/140‑1 (MQ=255)                                                                                           ttCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGa                                             <  1:382459/140‑1 (MQ=255)                                                                                                       gCTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCAt                                 >  2:930333/1‑140 (MQ=255)                                                                                                        cTATGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATg                                >  1:265251/1‑140 (MQ=255)                                                                                                          aTGATCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAg                              <  1:930333/140‑1 (MQ=255)                                                                                                             aTCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAg                              <  2:25155/137‑1 (MQ=255)                                                                                                             aTCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAg                              >  1:25155/1‑137 (MQ=255)                                                                                                             aTCAGCGGTTACTGTGATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAGCAc                           >  1:85640/1‑140 (MQ=255)                                                                                                                           tgATGTGCTTAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAGCACCATTGTGAtttttt             <  2:430271/140‑1 (MQ=255)                                                                                                                                   ttAATGACGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAGCACCATTGTGATTTTTTTAgctgct     >  1:30982/1‑140 (MQ=255)                                                                                                                                      atgacgCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAGCACCATTGTGATTTTTTTAGCTGCTTTg  <  2:265251/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                        ACATTTATGTAACTTAATAAATAATCGTCCTCAAATCAAATTAAAAGTCAATAGGTTGAAATAACTCCAGGAATTTGCTGATATTCCGCCTTCAGAGGGTTTGCTATGATCAGCGGTTACTGTGATGTGCTTAATGATGCTCAAGTTAAACTCCACGCTTGCCGATAGCCAACCGCAGAATCATGTATTGTGTCCGGTGCGACTGACCACGCCTGACAGACTAAGTAAGATGGGGAAAGCATGAGCACCATTGTGATTTTTTTAGCTGCTTTG  >  NC_000913/3526229‑3526501

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑