Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,661,508	T→G	T250P (ACC→CCC)	hcaR ←	DNA‑binding transcriptional regulator HcaR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,661,508	0	T	G	100.0%	263.6 / NA	69	T250P (ACC→CCC)	hcaR	DNA‑binding transcriptional regulator HcaR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (33/36);  total (33/36)

CGGCTTCATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGTATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATATTCGTTGCC  >  NZ_CP009273/2661422‑2661593                                                                                       |                                                                                      cGGCTTCATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGAtt                                                                                    >  1:337855/1‑90 (MQ=255)  ggCTTCATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTa                                                                                   >  1:2948410/1‑90 (MQ=255)  ggCTTCATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTa                                                                                   >  2:1501864/1‑90 (MQ=255)      tCATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAat                                                                               <  2:2124369/90‑1 (MQ=255)        aTCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAatta                                                                             <  2:339179/90‑1 (MQ=255)        aTCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAatta                                                                             <  1:2542475/90‑1 (MQ=255)         tctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGAtt                                                                                    <  1:1058702/82‑1 (MQ=255)         tctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGAtt                                                                                    >  2:1058702/1‑82 (MQ=255)         tctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAattat                                                                            >  2:2810000/1‑90 (MQ=255)         tctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAattat                                                                            <  1:1659117/90‑1 (MQ=255)         tctcCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAattat                                                                            <  1:1805275/90‑1 (MQ=255)            ccccTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCa                                                                         >  2:1472037/1‑90 (MQ=255)              ccTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTaa                                                                                  >  1:2773779/1‑79 (MQ=255)              ccTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTaa                                                                                  <  2:2773779/79‑1 (MQ=255)                tttCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTaa                                                                                  <  2:2716677/77‑1 (MQ=255)                tttCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTaa                                                                                  >  1:2716677/1‑77 (MQ=255)                tttCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCAtata                                                                     <  1:1431769/90‑1 (MQ=255)                 ttcttcCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATaa                                                                    >  2:1260441/1‑90 (MQ=255)                 ttcttcCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATaa                                                                    >  1:2637490/1‑90 (MQ=255)                      ccACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCggg                                                               >  2:1648835/1‑90 (MQ=255)                        aCGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTa                                                             >  2:1797014/1‑90 (MQ=255)                        aCGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTa                                                             >  2:2069075/1‑90 (MQ=255)                           ccATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCa                                                          <  2:980882/90‑1 (MQ=255)                           ccATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCa                                                          >  1:1950299/1‑90 (MQ=255)                             aTCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCaaa                                                        >  2:703017/1‑90 (MQ=255)                                aGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTg                                                     <  1:2810000/90‑1 (MQ=255)                                 gTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGa                                                    <  2:2460034/90‑1 (MQ=255)                                 gTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGa                                                    <  1:835109/90‑1 (MQ=255)                                 gTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGa                                                    <  1:1260441/90‑1 (MQ=255)                                    aaGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGc                                                 >  2:942032/1‑90 (MQ=255)                                    aaGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGc                                                 >  1:728955/1‑90 (MQ=255)                                     aGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAat                                                                               <  1:2471104/59‑1 (MQ=255)                                     aGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAat                                                                               >  2:2471104/1‑59 (MQ=255)                                     aGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGcc                                                >  2:273430/1‑90 (MQ=255)                                      gCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGccc                                               <  1:1041066/90‑1 (MQ=255)                                      gCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGccc                                               <  2:1483067/90‑1 (MQ=255)                                      gCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGccc                                               <  1:942032/90‑1 (MQ=255)                                      gCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGccc                                               <  2:918390/90‑1 (MQ=255)                                       cAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCa                                              >  1:142104/1‑90 (MQ=255)                                       cAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGCATCAAAGTGACGccc                                               <  2:375556/89‑1 (MQ=255)                                       cAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGCATCAAAGTGACGccc                                               >  1:375556/1‑89 (MQ=255)                                        aaTGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAg                                             <  2:292736/90‑1 (MQ=255)                                         aTGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGc                                            >  2:2394192/1‑90 (MQ=255)                                           ggAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCg                                                                 <  2:1390806/67‑1 (MQ=255)                                           ggAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCg                                                                 >  1:1390806/1‑67 (MQ=255)                                           ggAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGccc                                          >  1:1497411/1‑90 (MQ=255)                                             aaGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCa                                        <  2:2796754/90‑1 (MQ=255)                                             aaGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCa                                        <  2:2627340/90‑1 (MQ=255)                                              aGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCAt                                       >  1:2727/1‑90 (MQ=255)                                              aGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCAt                                       >  1:2355642/1‑90 (MQ=255)                                                gCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGc                                     >  2:2918653/1‑90 (MQ=255)                                                   caTTTCCGGCAATGGGACGAAAAACAACCTGTCCGGGGTTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCcca                                  >  1:1349165/1‑90 (MQ=255)                                                     tttCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCccacc                                <  1:277830/90‑1 (MQ=255)                                                     tttCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCccacc                                <  1:703017/90‑1 (MQ=255)                                                     tttCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCccacc                                <  1:2358493/90‑1 (MQ=255)                                                     tttCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCccacc                                <  1:210443/90‑1 (MQ=255)                                                     tttCCGGCAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCccacc                                >  2:1894612/1‑90 (MQ=255)                                                            cAATGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCa                         <  1:311410/90‑1 (MQ=255)                                                               tGGGACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATgg                      <  2:387590/90‑1 (MQ=255)                                                                 ggACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTc                    <  1:51485/90‑1 (MQ=255)                                                                  gACGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCa                   <  1:1889857/90‑1 (MQ=255)                                                                   aCGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTcgc                  <  2:2217668/90‑3 (MQ=255)                                                                   aCGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCAc                  >  1:2903192/1‑90 (MQ=255)                                                                    cGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCAcc                 <  2:2279258/90‑1 (MQ=255)                                                                    cGAAAAACAACCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCAcc                 <  2:212805/90‑1 (MQ=255)                                                                            aacCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGa                                                    >  1:1890906/1‑47 (MQ=255)                                                                            aacCTGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGa                                                    <  2:1890906/47‑1 (MQ=255)                                                                                tGTCCGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATATTCGtt     >  1:2364592/1‑90 (MQ=255)                                                                                   ccGGGATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATATTCGTTGcc  >  1:1195981/1‑90 (MQ=255)                                                                                       |                                                                                      CGGCTTCATCTCCCCTTTCTTCCACGCCATCAGTAAAGCAATGGAAGGCACATTTCCGGCAATGGGACGAAAAACAACCTGTCCGGTATTAAAATTATTCATATAACCGGGTATCAAAGTGACGCCCAGCCCCATGCCCACCAGATTCATGGTCACCAGAATATTCGTTGCC  >  NZ_CP009273/2661422‑2661593

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑