Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	417,041	T→G	intergenic (‑89/‑101)	sbcD ← / → phoB	exonuclease, dsDNA, ATP‑dependent/response regulator in two‑component regulatory system with PhoR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	417,041	0	T	G	100.0%	202.2 / NA	55	intergenic (‑89/‑101)	sbcD/phoB	exonuclease, dsDNA, ATP‑dependent/response regulator in two‑component regulatory system with PhoR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (28/27);  total (28/27)

TTTTACTGTAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCTGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTAGAAGATGAAGCTCCAATTCG  >  NC_000913/416898‑417185                                                                                                                                                |                                                                                                                                                 ttttACTGTAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGat                                                                                                                                            >  1:901999/1‑150 (MQ=255)  tttACTGTAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGat                                                                                                                                            <  1:674533/149‑1 (MQ=255)    tACTGTAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATAtgt                                                                                                                                        >  2:904114/1‑151 (MQ=255)       tGTAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGcg                                                                                                                                     >  1:748456/1‑151 (MQ=255)         tAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGcgac                                                                                                                                   >  2:864651/1‑151 (MQ=255)           gAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGcgacga                                                                                                                                 <  2:476687/151‑1 (MQ=255)              gTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCt                                                                                                                              >  2:747373/1‑151 (MQ=255)              gTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCt                                                                                                                              <  1:552259/151‑1 (MQ=255)                tCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCttt                                                                                                                            >  1:495774/1‑151 (MQ=255)                   ggCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCtttt                                                                                                                           <  1:800339/149‑1 (MQ=255)                             ccAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTtcataaatctgtc                                                                                                               <  2:833645/151‑1 (MQ=255)                              cAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTtcataaatctgtca                                                                                                              <  2:535126/151‑1 (MQ=255)                               aGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGTAAATCAATAACCGGAAGATATGTGCGACGAGCTTTtcataaatctgt                                                                                                                <  1:92794/148‑1 (MQ=255)                                   tGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTtcataaatctgtcataaat                                                                                                         >  1:467707/1‑151 (MQ=255)                                    gAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATATGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTtcataaatctgtcataaa                                                                                                          <  1:107282/149‑1 (MQ=255)                                       gtgtGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGa                                                                                                     <  2:690863/151‑1 (MQ=255)                                          tgAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGGGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGc                                                                                                  >  2:34056/1‑151 (MQ=255)                                            aaGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCAt                                                                                                >  1:795486/1‑151 (MQ=255)                                                aTGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATg                                                                                            <  1:707439/151‑1 (MQ=255)                                                 tGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATg                                                                                            >  2:328573/1‑150 (MQ=255)                                                   cgcATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACg                                                                                         >  1:495240/1‑151 (MQ=255)                                                     cATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTc                                                                                       <  2:149676/151‑1 (MQ=255)                                                         aCGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCAt                                                                                   >  1:789697/1‑151 (MQ=255)                                                           ggTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCAtt                                                                                  >  1:482666/1‑150 (MQ=255)                                                               cccTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATg                                                                              <  2:738866/150‑1 (MQ=255)                                                               cccTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGa                                                                             <  2:683004/151‑1 (MQ=255)                                                                ccTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGAt                                                                            >  2:831355/1‑151 (MQ=255)                                                                   ggCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGc                                                                         >  1:193846/1‑151 (MQ=255)                                                                   ggCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGc                                                                         <  2:223797/151‑1 (MQ=255)                                                                       aaaaaGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAAcc                                                                     <  1:474647/151‑1 (MQ=255)                                                                           aGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCtatt                                                                 >  2:737558/1‑151 (MQ=255)                                                                            gCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCtattt                                                                <  1:106829/151‑1 (MQ=255)                                                                                gggCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCtatttatt                                                             <  1:613332/150‑1 (MQ=255)                                                                                  gcgcGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTaca                                                          <  1:781142/151‑1 (MQ=255)                                                                                      gATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTacaac                                                        >  2:142804/1‑149 (MQ=255)                                                                                      gATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTacaac                                                        >  1:355761/1‑149 (MQ=255)                                                                                          ataCCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGc                                                   <  2:13178/150‑1 (MQ=255)                                                                                          ataCCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCa                                                  <  2:452931/151‑1 (MQ=255)                                                                                            aCCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCaa                                                 <  1:563198/150‑1 (MQ=255)                                                                                            aCCCAAACAGATGTGACATTTGCTTTTTTCTGAGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTATTGACCGCAACCTATTTATTACAACAGGGCaa                                                 >  1:64411/1‑150 (MQ=255)                                                                                                 aaCAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATg                                           <  2:82148/151‑1 (MQ=255)                                                                                                   cAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGc                                         >  2:875753/1‑151 (MQ=255)                                                                                                     gATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCga                                       <  2:123365/151‑1 (MQ=255)                                                                                                      aTGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCg                                        >  2:817224/1‑149 (MQ=255)                                                                                                         tgCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACg                                   >  2:549334/1‑151 (MQ=255)                                                                                                         tgCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACg                                   >  1:32206/1‑151 (MQ=255)                                                                                                          gCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGt                                  >  2:499401/1‑151 (MQ=255)                                                                                                                tGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCt                             <  2:630853/150‑1 (MQ=255)                                                                                                                tGCTTTTTTCTGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTg                            >  2:557755/1‑151 (MQ=255)                                                                                                                          tGCGCCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTaga                    >  2:627107/1‑149 (MQ=255)                                                                                                                           gcgcCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTagaaga                 <  2:396520/151‑1 (MQ=255)                                                                                                                           gcgcCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTagaaga                 <  1:612867/151‑1 (MQ=255)                                                                                                                             gcCACGGAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTAGAAGATg               <  1:168492/151‑1 (MQ=255)                                                                                                                                  ggAAATCAATAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTAGAAGATGAAGCt          >  1:419044/1‑151 (MQ=255)                                                                                                                                          aTAACCGGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTAGAAGATGAAGCTCCAATTcg  >  2:794197/1‑151 (MQ=255)                                                                                                                                                |                                                                                                                                                 TTTTACTGTAGAAGTTCTGGCCGAGATGCCAGTCTGAGGTGTGAAGGATGCGCATAACGGTTCCCTGGCGAAAAAGCATGGGCGCGATTATACCCAAACAGATGTGCCATTTGCTTTTTTCTGCGCCACGGAAATCAATAACCTGAAGATATGTGCGACGAGCTTTTCATAAATCTGTCATAAATCTGACGCATAATGACGTCGCATTAATGATCGCAACCTATTTATTACAACAGGGCAAATCATGGCGAGACGTATTCTGGTCGTAGAAGATGAAGCTCCAATTCG  >  NC_000913/416898‑417185

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑