Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,534,656	C→T	G405R (GGG→AGG)	envZ ←	sensory histidine kinase in two‑component regulatory system with OmpR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,534,656	0	C	T	100.0%	208.7 / NA	64	G405R (GGG→AGG)	envZ	sensory histidine kinase in two‑component regulatory system with OmpR
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (37/27);  total (37/27)

TTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCCTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGATTCGGCTCCGTTCC  >  NC_000913/3534522‑3534788                                                                                                                                       |                                                                                                                                     ttcttTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAAt                                                                                                                                  >  1:95190/1‑139 (MQ=255) ttcttTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCACTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAAt                                                                                                                                  >  2:24493/1‑139 (MQ=255)         tCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGcc                                                                                                                          >  2:1428446/1‑139 (MQ=255)           gTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGc                                                                                                                        >  1:790702/1‑139 (MQ=255)            tGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCt                                                                                                                       >  2:877613/1‑139 (MQ=255)              cccTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTaa                                                                                                                     >  1:15768/1‑139 (MQ=255)                   cgcCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTg                                                                                                                >  2:530618/1‑139 (MQ=255)                   cgcCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTg                                                                                                                >  1:240158/1‑139 (MQ=255)                             aCCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGt                                                                                                      >  2:1622614/1‑139 (MQ=255)                                   aCTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTcgccgc                                                                                                >  1:586860/1‑139 (MQ=255)                                   aCTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTcgccgc                                                                                                >  1:1556892/1‑139 (MQ=255)                                    cTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCcgcg                                                                                               >  2:1376646/1‑139 (MQ=255)                                        cAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACa                                                                                           >  2:437932/1‑139 (MQ=255)                                          gCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACaaa                                                                                         <  1:1428446/139‑1 (MQ=255)                                           ccAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTgcgcg                                                                                                            <  2:1487873/119‑1 (MQ=255)                                           ccAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTgcgcg                                                                                                            >  1:1487873/1‑119 (MQ=255)                                               gcgcGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGc                                                                                     >  1:675409/1‑138 (MQ=255)                                               gcgcGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGc                                                                                     <  2:675409/138‑1 (MQ=255)                                               gcgcGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCt                                                                                    <  1:437932/139‑1 (MQ=255)                                                  cgAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGa                                                                                 <  2:240158/139‑1 (MQ=255)                                                    aaTGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAAc                                                                               <  2:1556892/139‑1 (MQ=255)                                                     aTGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACa                                                                              <  1:530618/139‑1 (MQ=255)                                                     aTGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACa                                                                              >  2:162718/1‑139 (MQ=255)                                                          aaGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAgg                                                                            >  1:1467332/1‑136 (MQ=255)                                                          aaGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAgg                                                                            <  2:1467332/136‑1 (MQ=255)                                                                 ccccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACa                                                                                           >  1:569187/1‑114 (MQ=255)                                                                 ccccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACa                                                                                           <  2:569187/114‑1 (MQ=255)                                                                 ccccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACgtt                                                                  >  2:317419/1‑139 (MQ=255)                                                                  cccgcTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACgttg                                                                 >  2:1048216/1‑139 (MQ=255)                                                                       tcgctGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTcgcc                                                                                                  >  1:1448023/1‑101 (MQ=255)                                                                       tcgctGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTcgcc                                                                                                  <  2:1448023/101‑1 (MQ=255)                                                                         gctGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgc                                                          <  1:317419/139‑1 (MQ=255)                                                                            ggTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCa                                                       >  1:1038493/1‑139 (MQ=255)                                                                                   aGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgcg                                                         >  1:617487/1‑130 (MQ=255)                                                                                   aGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGgcg                                                         <  2:617487/130‑1 (MQ=255)                                                                                   aGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCg                                                >  1:1477329/1‑139 (MQ=255)                                                                                        cAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCgg                                                                                              <  1:1596068/88‑1 (MQ=255)                                                                                        cAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCgg                                                                                              >  2:1596068/1‑88 (MQ=255)                                                                                             tCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATc                                      <  2:95190/139‑1 (MQ=255)                                                                                             tCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATc                                      <  2:1477329/139‑1 (MQ=255)                                                                                               ccGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACaa                                                                                          <  2:93749/85‑1 (MQ=255)                                                                                               ccGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACaa                                                                                          >  1:93749/1‑85 (MQ=255)                                                                                               ccGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCtt                                    <  2:790702/139‑1 (MQ=255)                                                                                                    aTGGTTATCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCAcc                               >  2:494018/1‑139 (MQ=255)                                                                                                          aTCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGt                                                                                                                 <  2:1524048/51‑1 (MQ=255)                                                                                                          aTCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGt                                                                                                                 >  1:1524048/1‑51 (MQ=255)                                                                                                          aTCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAAc                         >  1:1349130/1‑139 (MQ=255)                                                                                                           tCCACGATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAAcc                        >  1:873535/1‑139 (MQ=255)                                                                                                                gATACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGgcg                   <  2:1349130/139‑1 (MQ=255)                                                                                                                  tACGCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGcgcg                 >  2:469457/1‑139 (MQ=255)                                                                                                                     gCTGCACAATTGCCAGCCTTAATCCCGTGTCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTc                                   >  2:1417931/1‑118 (MQ=255)                                                                                                                     gCTGCACAATTGCCAGCCTTAATCCCGTGTCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTc                                   <  1:1417931/118‑1 (MQ=255)                                                                                                                     gCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGAtt              <  1:1048216/139‑1 (MQ=255)                                                                                                                     gCTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGAtt              >  1:407472/1‑139 (MQ=255)                                                                                                                      cTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAg                                                                             <  2:1220818/75‑1 (MQ=255)                                                                                                                      cTGCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAg                                                                             >  1:1220818/1‑75 (MQ=255)                                                                                                                        gCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGATTCgg           <  1:877613/139‑1 (MQ=255)                                                                                                                        gCACAATTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGATTCgg           <  1:1622614/139‑1 (MQ=255)                                                                                                                             aTTGCCAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGATTCGGCTCCg      <  2:407472/139‑1 (MQ=255)                                                                                                                                 ccAGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGATTCGGCTCCGTTcc  >  2:118111/1‑139 (MQ=255)                                                                                                                                   aGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACg                                                                    <  2:351248/71‑1 (MQ=255)                                                                                                                                   aGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACg                                                                    >  1:351248/1‑71 (MQ=255)                                                                                                                                   aGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCAt                                       >  2:662719/1‑100 (MQ=255)                                                                                                                                   aGCCTTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCAt                                       <  1:662719/100‑1 (MQ=255)                                                                                                                                       |                                                                                                                                     TTCTTTTGTCGTGCCCTGCGCCCGCGTTACCGGCACTGGCAGCCAGGCGCGAATGGAAAGCCCGCCCCGCTCGCTGGTGCCAAGCTCCAGCATCCCGTTATGGTTATCCACGATACGCTGCACAATTGCCAGCCCTAATCCCGTGCCGCTAATGGTGCGCGCACTGTCGCCGCGGACAAACGGCTGGAACAGGTGCTTACGTTGTTCCGGCGCAATTCCCGGACCGTCATCTTCCACCTGGAACCAGGCGCGATTCGGCTCCGTTCC  >  NC_000913/3534522‑3534788

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑