Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,534,920	G→A	R317W (CGG→TGG)	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	3,534,920	0	G	A	100.0%	158.0 / NA	47	R317W (CGG→TGG)	envZ	sensory histidine kinase in two‑component regulatory system with OmpR
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (24/23);  total (24/23)

TTCCGCTGCTGACTTTGATCCAGCCATTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCGCTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATAT  >  NC_000913/3534785‑3535051                                                                                                                                        |                                                                                                                                    ttCCGCTGCTGACTTTGATCCAGCCATTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTc                                                                                                                                  >  1:1425043/1‑139 (MQ=255)               ttGATCCAGCCATTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCgg                                                                                                                    <  2:1260229/139‑1 (MQ=255)                      aGCCCTTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAt                                                                                                             >  1:1337229/1‑139 (MQ=255)                       gCCATTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAtc                                                                                                            >  1:1061894/1‑139 (MQ=255)                          aTTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAtcacc                                                                                                         <  1:160953/139‑1 (MQ=255)                          aTTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAtcacc                                                                                                         <  1:276684/139‑1 (MQ=255)                            tGCCATAACGGGCGGGGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTGAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAtcacctc                                                                                                       >  2:979568/1‑139 (MQ=255)                                 tAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGa                                                                                                  >  1:122898/1‑139 (MQ=255)                                   aCGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGt                                                                                                >  1:851139/1‑139 (MQ=255)                                    cGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTa                                                                                               <  2:122898/139‑1 (MQ=255)                                      ggcggcGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACt                                                                                             >  1:1318455/1‑139 (MQ=255)                                                          tCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAtcacc                                                                                                         <  2:1225798/107‑1 (MQ=255)                                                          tCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAAtcacc                                                                                                         >  1:1225798/1‑107 (MQ=255)                                                            gCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCa                                                                       <  2:851139/139‑1 (MQ=255)                                                              cACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATc                                                                     >  1:465297/1‑139 (MQ=255)                                                                   cgcgTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCAt                                                                >  2:238554/1‑139 (MQ=255)                                                                   cgcgTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCAt                                                                >  2:382724/1‑139 (MQ=255)                                                                   cgcgTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCAt                                                                >  2:1034894/1‑139 (MQ=255)                                                                           aTCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGcc                                                        <  2:1318455/139‑1 (MQ=255)                                                                                  gCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTgcg                                                 >  2:341416/1‑139 (MQ=255)                                                                                     ggTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTa                                                                                               >  1:806713/1‑90 (MQ=255)                                                                                     ggTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTa                                                                                               <  2:806713/90‑1 (MQ=255)                                                                                      gTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTCAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAgg                                             >  1:375757/1‑139 (MQ=255)                                                                                       tGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGt                                            <  2:607340/139‑1 (MQ=255)                                                                                       tGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGt                                            <  1:238554/139‑1 (MQ=255)                                                                                             ttCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTa                                                                                               <  1:566157/82‑1 (MQ=255)                                                                                             ttCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGa                                      >  1:1330552/1‑139 (MQ=255)                                                                                             ttCACCTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCATTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTa                                                                                               >  2:566157/1‑82 (MQ=255)                                                                                                 cTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATaaa                                  <  1:1343770/139‑1 (MQ=255)                                                                                                   tCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACttt                                                                                                                       >  1:1128805/1‑52 (MQ=255)                                                                                                   tCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACttt                                                                                                                       <  2:1128805/52‑1 (MQ=255)                                                                                                    cAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTg                               <  2:1337229/139‑1 (MQ=255)                                                                                                            ccGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGt                                                                                                <  2:185862/66‑1 (MQ=255)                                                                                                            ccGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGt                                                                                                >  1:185862/1‑66 (MQ=255)                                                                                                            ccGGGGTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAatga                       <  2:987498/139‑1 (MQ=255)                                                                                                                 gTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGgcagc                                                                                                                <  2:901720/45‑1 (MQ=255)                                                                                                                 gTAAAGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGgaagc                                                                                                                >  1:901720/1‑45 (MQ=255)                                                                                                                    aaGCGCGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTg               <  2:1330552/139‑1 (MQ=255)                                                                                                                      gcgcGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCa             <  2:375757/139‑1 (MQ=255)                                                                                                                      gcgcGGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGAT‑AACTGCTCAATGATGGCGTTGCAc            >  1:281164/1‑139 (MQ=255)                                                                                                                       cgcgTTTTCAATTTCCCACTCAGAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCAc            <  2:951648/139‑1 (MQ=255)                                                                                                                         cgGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAg                                                                                                 <  2:454683/52‑1 (MQ=255)                                                                                                                         cgGTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAg                                                                                                 >  1:454683/1‑52 (MQ=255)                                                                                                                          ggTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTg                                                   <  1:826772/97‑1 (MQ=255)                                                                                                                          ggTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTg                                                   >  2:826772/1‑97 (MQ=255)                                                                                                                           gTTTCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCtt        >  2:614476/1‑139 (MQ=255)                                                                                                                              tCAATTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGa     <  2:817915/139‑1 (MQ=255)                                                                                                                                 aTTTCCCACTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGatat  <  2:1061894/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                    TTCCGCTGCTGACTTTGATCCAGCCATTGCCATAACGGGCGGCGTTGACCACCATATTCGCCACCGCGCGTTTGATCGACAGCGGGTGCATTTTCACTTCAATGCTGCCGGGGTAAAGCGCGGTTTCAATTTCCCGCTCATAGCCACTTTCGGCAGCAATCACCTCACCGAGTACTGCATTAAGATCCGCCATTTCCATCGGCATCTCCTGCCCGGTGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATAT  >  NC_000913/3534785‑3535051

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑