Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009273	3,528,506	A→C	V241G (GTA→GGA)	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
*	CP009273	3,528,506	0	A	C	100.0%	169.1 / NA	53	V241G (GTA→GGA)	envZ	sensory histidine kinase in two‑component regulatory system with OmpR
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base C (29/24);  total (29/24)

TGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTACCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGCGGCGGCGGAATAATCCCTTTACCAACCTGCAAGGC  >  CP009273/3528360‑3528651                                                                                                                                                   |                                                                                                                                                   tGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTccc                                                                                                                                                  <  2:12271/149‑1 (MQ=255)   cgcAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCcccc                                                                                                                                                <  2:346952/149‑1 (MQ=255)      aGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCCGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGc                                                                                                                                             <  2:735045/149‑1 (MQ=255)      aGGTAGTCGAGAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATGGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGc                                                                                                                                             <  1:339966/149‑1 (MQ=255)        gTAGTCGATAAACTGCTCAATGACGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCAGCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCa                                                                                                                                           <  1:866091/149‑1 (MQ=255)            tCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGGGACTTCCCCCCGCCATcag                                                                                                                                       >  1:339527/1‑149 (MQ=255)             cGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATcagc                                                                                                                                      >  2:643959/1‑149 (MQ=255)                tacaCTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCGTCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCagcagc                                                                                                                                   <  1:924045/146‑1 (MQ=255)                     tGCTCAATGATGGCGTTGCCCTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCg                                                                                                                              <  1:142005/149‑1 (MQ=255)                     tGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCg                                                                                                                              <  1:300558/149‑1 (MQ=255)                       cTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGt                                                                                                                            >  2:50598/1‑149 (MQ=255)                         cAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCa                                                                                                                          >  1:471086/1‑149 (MQ=255)                          aaTGATGGCGTTGCACTCTTCGATAACTATATTGATCGATTCTGCCAAATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCACCAGCGTCCGGTCAt                                                                                                                         >  1:562417/1‑149 (MQ=255)                           aggatgGCGTTGCTCTTTTCGATATCTTTATTGATCGATTCTGCCAGATGGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATc                                                                                                                        <  2:36050/147‑1 (MQ=255)                                    ttGCTCTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTg                                                                                                               <  1:577410/149‑1 (MQ=255)                                     tGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCTTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑c                                                                                                             <  2:217601/149‑1 (MQ=255)                                      gCACTCTTCGATATCTTTATTGATCGATTCTGCCCGATAGCCATCCTGCTCGCTCATCATATAAGCCGCCTGGCGACTACGCGTCAGCGGCGTTCGCCAGTCGGGACTTCCCCCCGCCCTCAGCAGCGTCCGATCCTCCGACAGTTG‑Ct                                                                                                            >  1:443114/1‑149 (MQ=255)                                            ttCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAacac                                                                                                      >  1:68739/1‑149 (MQ=255)                                             tCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACAcc                                                                                                     >  1:221597/1‑149 (MQ=255)                                               gATATCTTTATTGCTCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAg                                                                                                   <  2:231306/149‑1 (MQ=255)                                               gATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGAAGCCAGCCGAAAACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAaccacag                                                                                                   >  2:414058/1‑144 (MQ=255)                                                     tttATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCa                                                                                             <  1:263879/149‑1 (MQ=255)                                                          tGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATgg                                                                                        <  2:891141/149‑1 (MQ=255)                                                             tCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGttg                                                                                     >  1:398694/1‑148 (MQ=255)                                                                aTTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGCCTTCCCCCCGCCATCAGCAGCGTGAGGTCATAAGCCAGATGACTAAACA‑CAGCTGCCAGATGGTTAAAg                                                                                  <  2:590083/149‑1 (MQ=255)                                                                 ttCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAgg                                                                                 >  1:179193/1‑149 (MQ=255)                                                                 ttCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAgg                                                                                 >  2:892489/1‑149 (MQ=255)                                                                      ccAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGGCTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCCTATGGGTACAGGCCCgg                                                                            >  2:330933/1‑149 (MQ=255)                                                                           tAGCCATCCTGCCCCCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAAc                                                                       <  1:403209/149‑1 (MQ=255)                                                                              ccATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGa                                                                    <  2:765504/149‑1 (MQ=255)                                                                                agccTGCTCGGGCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGCCTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAAc                                                                  <  2:709855/147‑1 (MQ=255)                                                                                           tcatcaTCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGaa                                                       <  1:643959/149‑1 (MQ=255)                                                                                           tcatcaTCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACCGAACGCACCTCCGaa                                                       >  2:465136/1‑149 (MQ=255)                                                                                            catcatCTCAGTCGCCAGGCGAATACGCGTCAGCGACGTGCGCAAGTCGTGACTTCCCCCCGCAATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTGAAAGGCACGGGTAACGGAACGCACCTCCGAAg                                                      >  2:625258/1‑149 (MQ=255)                                                                                             atcatcTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGAACGCGTAACGGAAAGCACCCCCGCAgc                                                     >  2:760670/1‑149 (MQ=255)                                                                                                atcTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGcc                                                  >  1:871581/1‑149 (MQ=255)                                                                                                   tcAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTGAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATa                                               >  1:772498/1‑149 (MQ=255)                                                                                                   tcAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACGTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATa                                               >  2:309612/1‑149 (MQ=255)                                                                                                     aGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCCTACt                                             >  2:909499/1‑149 (MQ=255)                                                                                                         gCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACg                                         <  2:166617/149‑1 (MQ=255)                                                                                                                aaaTGCGCGTCTGCGGCGTGCGCCAGTCGTGACTTCCCCCCGCCACCAGCGGCGTGCGGGCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAgcggc                                  <  1:388577/148‑1 (MQ=255)                                                                                                                   tACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTCAAGGCACGGGTAACGGAACGCACCTCCGACGCGCCAGACTCACGCAgcggcggc                               >  1:410838/1‑149 (MQ=255)                                                                                                                   tACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAgcggcggc                               >  1:620630/1‑149 (MQ=255)                                                                                                                   tACGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAgcggcggc                               >  1:37491/1‑149 (MQ=255)                                                                                                                    aCGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAgcggcggcg                              <  2:311183/149‑1 (MQ=255)                                                                                                                    aCGCGTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGGAACGGAACGCACCTACGAATCGCCAGACCCACGCAgccgcggcg                              >  1:433366/1‑149 (MQ=255)                                                                                                                    aCGCGGCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCTGAAGCGCCATACTCACGCAgcggcggcg                              <  1:162929/149‑1 (MQ=255)                                                                                                                     cgcgTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGcggcggcgg                             <  2:97857/149‑1 (MQ=255)                                                                                                                      gcgTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGCACGCACCTCCGAAGCGCCATACTCACGCAGCGGCCGCGGa                            >  1:16118/1‑149 (MQ=255)                                                                                                                      gcgTCAGCGGCGTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGCGGCGGCGGa                            <  2:68739/149‑1 (MQ=255)                                                                                                                               gcgTGCGCAAGTCGTGACTACCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGCGGCGGCGGAATAATCCCt                   >  1:727445/1‑149 (MQ=255)                                                                                                                                cgTGCGCAAGTCGTGACTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCAAAGCGCCAGACTCACGCAGCGGCGACGGAAAAATCCCtt                  >  2:264695/1‑149 (MQ=255)                                                                                                                                                cTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGCGGCGGCGGAATAATCCCTTTACCAACCTGCAAGGc  >  1:904355/1‑149 (MQ=255)                                                                                                                                                cTTCCCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGCGGCGGCGGAATAATCCCTTTACCAACCTGCAAGGc  >  1:467784/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                   TGCGCAGGTAGTCGATAAACTGCTCAATGATGGCGTTGCACTCTTCGATATCTTTATTGATCGATTCTGCCAGATAGCCATCCTGCTCGCTCATCATCTCAGTCGCCAGGCGAATACGCGTCAGCGGCGTGCGCAAGTCGTGACTTACCCCCGCCATCAGCAGCGTGCGGTCATCCGCCAGTTG‑CTTAACACCAGCCGCCATATGGTTAAAGGCACGGGTAACGGAACGCACCTCCGAAGCGCCATACTCACGCAGCGGCGGCGGAATAATCCCTTTACCAACCTGCAAGGC  >  CP009273/3528360‑3528651

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑