Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	4,192,005	A→G	E51G (GAA→GGA)	zraS →	two‑component system sensor histidine kinase ZraS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	4,192,005	0	A	G	100.0%	203.9 / NA	52	E51G (GAA→GGA)	zraS	two‑component system sensor histidine kinase ZraS
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (23/29);  total (23/29)

TCTAAAGACTCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGAAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCGGGAGTGTTGTGGTTCGCAGT  >  NZ_CP009273/4191872‑4192137                                                                                                                                      |                                                                                                                                     tCTAAAGACTCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAg                                                                                                                                 >  1:387585/1‑139 (MQ=255)     aaGACTCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTa                                                                                                                              <  1:711210/138‑1 (MQ=255)          tCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGc                                                                                                                        >  1:51455/1‑139 (MQ=255)          tCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGc                                                                                                                        >  2:40600/1‑139 (MQ=255)          tCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGAGc                                                                                                                        >  2:495075/1‑139 (MQ=255)                    aaTGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCgcgc                                                                                                              >  1:713836/1‑139 (MQ=255)                      tGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGctc                                                                                                            >  2:735715/1‑139 (MQ=255)                                  aTCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCggg                                                                                                  >  2:393615/1‑137 (MQ=255)                                  aTCCTCCCCGTGGTCATTGTTGGGCTGGTGGGAGTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGaa                                                                                                <  2:281793/139‑1 (MQ=255)                                   tcctccCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGgaaa                                                                                                                                   <  2:231912/103‑1 (MQ=255)                                   tcctccCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGgaaa                                                                                                                                   >  1:231912/1‑103 (MQ=255)                                   tcctccCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAg                                                                                               <  1:283701/139‑1 (MQ=255)                                   tcctccCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAg                                                                                               >  2:165992/1‑139 (MQ=255)                                        cccGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCcg                                                                                                                 <  2:627549/116‑1 (MQ=255)                                        cccGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCcg                                                                                                                 >  1:627549/1‑116 (MQ=255)                                        cccGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCcgcg                                                                                          <  1:191826/139‑1 (MQ=255)                                             ggTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgg                                                                                      >  1:412256/1‑138 (MQ=255)                                             ggTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgg                                                                                      >  2:67098/1‑138 (MQ=255)                                             ggTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgg                                                                                      >  2:90076/1‑138 (MQ=255)                                                     ttgGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgggatgggga                                                                              <  1:696947/138‑1 (MQ=255)                                                     ttgGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgggatgggga                                                                              <  2:141875/138‑1 (MQ=255)                                                     ttgGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgggatgggga                                                                              <  2:71903/138‑1 (MQ=255)                                                       gggCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgggatggggatg                                                                            <  1:90076/138‑1 (MQ=255)                                                       gggCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAgggatggggatg                                                                            <  2:640721/138‑1 (MQ=255)                                                         gCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCg                                                                          >  2:29862/1‑138 (MQ=255)                                                             gtggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGgaaa                                                                                                                                   <  1:609503/77‑1 (MQ=255)                                                             gtggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGgaaa                                                                                                                                   >  2:609503/1‑77 (MQ=255)                                                             gtggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCcgcg                                                                                                               >  1:721768/1‑97 (MQ=255)                                                             gtggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCcgcg                                                                                                               <  2:721768/97‑1 (MQ=255)                                                             gtggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGaa                                                                                                >  1:404618/1‑112 (MQ=255)                                                             gtggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGaa                                                                                                <  2:404618/112‑1 (MQ=255)                                                              tggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCa                                                                    <  1:67098/139‑1 (MQ=255)                                                              tggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCa                                                                    <  2:638219/139‑1 (MQ=255)                                                              tggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCa                                                                    <  2:51455/139‑1 (MQ=255)                                                              tggGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCa                                                                    <  1:29862/139‑1 (MQ=255)                                                                ggATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCAcc                                                                  <  2:412256/139‑1 (MQ=255)                                                                 gATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCa                                                                 <  2:335673/139‑1 (MQ=255)                                                                   ttGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCa                                                                    <  1:407096/134‑1 (MQ=255)                                                                   ttGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCa                                                                    >  2:407096/1‑134 (MQ=255)                                                                      tttGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTAc                                                            <  2:181295/139‑1 (MQ=255)                                                                       ttGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGgaaa                                                                                                                                   >  1:144508/1‑67 (MQ=255)                                                                       ttGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGgaaa                                                                                                                                   <  2:144508/67‑1 (MQ=255)                                                                        tGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAg                                                          >  1:489800/1‑139 (MQ=255)                                                                                     aTTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGa                                                                         <  2:536301/111‑1 (MQ=255)                                                                                     aTTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGa                                                                         >  1:536301/1‑111 (MQ=255)                                                                                             ttATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAagag                                     <  1:495075/139‑1 (MQ=255)                                                                                                 gggcgggcAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATgg                                 >  2:675694/1‑139 (MQ=255)                                                                                                      ggcAAGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCTGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGa                            <  2:768527/139‑1 (MQ=255)                                                                                                          aGCGAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGc                        <  2:489800/139‑1 (MQ=255)                                                                                                             gAGGCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCgg                     <  1:165992/139‑1 (MQ=255)                                                                                                                gCAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCGGGAg                  <  1:40600/139‑1 (MQ=255)                                                                                                                 cAGACCGCCAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCGGGAgt                 >  2:461419/1‑139 (MQ=255)                                                                                                                        ccAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCGGGAGTGTTGTgg          >  2:578384/1‑139 (MQ=255)                                                                                                                         cAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCcgcg                                                                                          >  2:154483/1‑58 (MQ=255)                                                                                                                         cAGGCATTACTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCcgcg                                                                                          <  1:154483/58‑1 (MQ=255)                                                                                                                                 aCTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAaga                                      >  2:284319/1‑102 (MQ=255)                                                                                                                                 aCTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAaga                                      <  1:284319/102‑1 (MQ=255)                                                                                                                                 aCTGGGAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCGGGAGTGTTGTGGTTCGCAGt  <  2:713836/138‑1 (MQ=255)                                                                                                                                      |                                                                                                                                     TCTAAAGACTCCTTAGCTAAATGGTTAAGCGCGATCCTCCCCGTGGTCATTGTTGGGCTGGTGGGATTGTTTGCGGTAACTGTGATTCGTGATTATGGGCGGGCAAGCGAGGCAGACCGCCAGGCATTACTGGAAAAAGGTAATGTGCTTATCCGCGCTCTGGAGTCGGGAAGCCGCGTAGGGATGGGGATGCGAATGCACCATGTACAGCAACAGGCGCTTCTGGAAGAGATGGCGGGACAGCCGGGAGTGTTGTGGTTCGCAGT  >  NZ_CP009273/4191872‑4192137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑