Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,275,815	T→C	E5E (GAA→GAG)	narL ←	response regulator in two‑component regulatory system with NarX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,275,815	0	T	C	100.0%	221.7 / NA	63	E5E (GAA→GAG)	narL	response regulator in two‑component regulatory system with NarX
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (31/32);  total (31/32)

ACTCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGTTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATCGCG  >  NC_000913/1275682‑1275950                                                                                                                                      |                                                                                                                                        aCTCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTg                                                                                                                                    >  2:1113707/1‑139 (MQ=255)  cTCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGa                                                                                                                                   >  2:336440/1‑139 (MQ=255)   tCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGAt                                                                                                                                  >  2:745913/1‑139 (MQ=255)   tCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGAt                                                                                                                                  <  2:719612/139‑1 (MQ=255)   tCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGAt                                                                                                                                  >  1:719612/1‑139 (MQ=255)     cGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTa                                                                                                                                >  1:634284/1‑139 (MQ=255)      gCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTAc                                                                                                                               >  2:1345095/1‑139 (MQ=255)       ccAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACt                                                                                                                              <  1:363837/139‑1 (MQ=255)            tCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATgg                                                                                                                         <  1:1113707/139‑1 (MQ=255)              aaTACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGt                                                                                                                       <  1:1199947/139‑1 (MQ=255)               aTACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTa                                                                                                                      <  1:669671/139‑1 (MQ=255)                tACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTAt                                                                                                                     <  2:634284/139‑1 (MQ=255)                tACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTAt                                                                                                                     <  2:841385/139‑1 (MQ=255)                     tGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCa                                                                                                                            >  2:797599/1‑127 (MQ=255)                     tGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCa                                                                                                                            <  1:797599/127‑1 (MQ=255)                       ttCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGa                                                                                                                                   >  1:194626/1‑118 (MQ=255)                       ttCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGa                                                                                                                                   <  2:194626/118‑1 (MQ=255)                       ttCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCAATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTg                                                                                                              >  2:1052054/1‑139 (MQ=255)                               tACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACGCATGGGTCTCTCCTTGGACGTCtg                                                                                                      >  2:378055/1‑139 (MQ=255)                                 cTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTa                                                                                                                      <  1:152990/121‑1 (MQ=255)                                 cTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTa                                                                                                                      >  2:152990/1‑121 (MQ=255)                                      ttCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGt                                                                                               >  1:48393/1‑139 (MQ=255)                                      ttCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGt                                                                                               >  1:659984/1‑139 (MQ=255)                                              ccACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTa                                                                                                                      >  1:322359/1‑108 (MQ=255)                                              ccACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTa                                                                                                                      <  2:322359/108‑1 (MQ=255)                                                aCGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGa                                                                                     >  2:144720/1‑139 (MQ=255)                                                    tGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATaa                                                                                 >  1:1542745/1‑139 (MQ=255)                                                          cTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGa                                                                           <  2:659984/139‑1 (MQ=255)                                                              tGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGaccac                                                                       >  1:615640/1‑139 (MQ=255)                                                                ccATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTc                                                                                                                                       <  1:388641/73‑1 (MQ=255)                                                                ccATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTc                                                                                                                                       >  2:388641/1‑73 (MQ=255)                                                                  aTACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTAt                                                                                                                     >  1:937092/1‑89 (MQ=255)                                                                  aTACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTAt                                                                                                                     <  2:937092/89‑1 (MQ=255)                                                                        aTAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCggg                                                                                      <  2:27266/114‑1 (MQ=255)                                                                        aTAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCggg                                                                                      >  1:27266/1‑114 (MQ=255)                                                                                       ccAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCacga                                              >  2:710495/1‑139 (MQ=255)                                                                                        cAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATTAGTATCTCCTTGGAGGTCTGTGAAAGTTTTTTCGGGAATATAGGTGACCACCACTTCGGTGCCACCTGATTCacgac                                             <  1:1052054/139‑1 (MQ=255)                                                                                         aGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGAt                                                                                                                                  <  1:259940/53‑1 (MQ=255)                                                                                         aGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGAt                                                                                                                                  >  2:259940/1‑53 (MQ=255)                                                                                         aGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCacgacg                                            <  2:804580/139‑1 (MQ=255)                                                                                          gTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGa                                                                                                                                   >  1:948294/1‑51 (MQ=255)                                                                                          gTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGa                                                                                                                                   <  2:948294/51‑1 (MQ=255)                                                                                          gTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCAc                                                         >  2:1401356/1‑125 (MQ=255)                                                                                          gTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCAc                                                         <  1:1401356/125‑1 (MQ=255)                                                                                          gTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGAcgg                                           >  1:296715/1‑139 (MQ=255)                                                                                                            tCGTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGTGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCt                         >  1:1154342/1‑139 (MQ=255)                                                                                                              gTCAATCAGCAGGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCg                       >  2:32924/1‑139 (MQ=255)                                                                                                                    cagcagGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACt                 <  2:1154342/139‑1 (MQ=255)                                                                                                                    cagcagGATAGTAGCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACt                 <  1:745913/139‑1 (MQ=255)                                                                                                                               tagCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTg                                                             <  2:966270/84‑1 (MQ=255)                                                                                                                               tagCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTg                                                             >  1:966270/1‑84 (MQ=255)                                                                                                                               tagCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGAt      >  2:399881/1‑139 (MQ=255)                                                                                                                                 gCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATc                             >  2:30587/1‑114 (MQ=255)                                                                                                                                 gCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATc                             <  1:30587/114‑1 (MQ=255)                                                                                                                                 gCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcg    <  1:787556/139‑1 (MQ=255)                                                                                                                                 gCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcg    <  2:48393/139‑1 (MQ=255)                                                                                                                                 gCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcg    <  1:1345095/139‑1 (MQ=255)                                                                                                                                 gCCGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcg    <  2:1542745/139‑1 (MQ=255)                                                                                                                                  ccGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTg                                                             <  1:1360814/81‑1 (MQ=255)                                                                                                                                  ccGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTg                                                             >  2:1360814/1‑81 (MQ=255)                                                                                                                                  ccGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcgc   <  2:296715/139‑1 (MQ=255)                                                                                                                                   cGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcgcg  <  2:615640/139‑1 (MQ=255)                                                                                                                                   cGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATcgcg  <  1:144720/139‑1 (MQ=255)                                                                                                                                   cGGCTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCCGGAATAAAGGTGACCACCACTTCCGTGCCACCTGATTCACGACGGCGGCCGCGGCAATCGCCTCGTAAACTTTGCGCACGATcgcg  <  1:336440/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                                        ACTCCGCCAGTTCAATACCCTGTTCGCCATTACTCGCTTCGCCAACCACGGTGATATCTGGTGCCATACTGATAAGCTGTTTTACGCCAGTTCGCAGCATCGGGTGATCGTCAATCAGCAGGATAGTAGCCGGTTCCTGATTACTCATGGGTATCTCCTTGGACGTCTGTGAAAGTTTTTTCGGGAATAAAGGTGACCACCACTTCGGTGCCACCTGATTCACGACGGCGGACGCGGCAATCGCCTCGTAAACTTTGCGCACGATCGCG  >  NC_000913/1275682‑1275950

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑