Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,242,080	T→C	intergenic (‑9/+86)	cvrA ← / ← ldcA	putative K(+):H(+) antiporter/murein L,D‑carboxypeptidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,242,080	0	T	C	100.0%	222.5 / NA	60	intergenic (‑9/+86)	cvrA/ldcA	putative K(+):H(+) antiporter/murein L,D‑carboxypeptidase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (25/35);  total (25/35)

CATGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTTACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCG  >  NC_000913/1241943‑1242216                                                                                                                                          |                                                                                                                                         cATGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCAc                                                                                                                                        <  1:732560/140‑1 (MQ=255) cATGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCAc                                                                                                                                        <  1:446433/140‑1 (MQ=255)  aTGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACt                                                                                                                                       <  2:965517/140‑1 (MQ=255)  aTGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACt                                                                                                                                       >  2:337819/1‑140 (MQ=255)  aTGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACt                                                                                                                                       <  1:202836/140‑1 (MQ=255)    gCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTcc                                                                                                                                     >  2:1069241/1‑140 (MQ=255)       gATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGa                                                                                                                                  >  2:591413/1‑140 (MQ=255)            ccAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACg                                                                                                                             <  1:337819/140‑1 (MQ=255)            ccAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCACCCAACGGTCGGTCACTCCTGATTACg                                                                                                                             <  2:1061723/140‑1 (MQ=255)             cAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGc                                                                                                                            >  2:1230389/1‑140 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTATGCt                                                                                                                           <  1:22903/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:1069241/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  2:72376/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:972410/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:554335/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:1230389/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:1200614/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:311326/140‑1 (MQ=255)              aGAAAAATAACCAGAATAGGAATACCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCt                                                                                                                           <  1:1088912/140‑1 (MQ=255)                aaaaaTAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGt                                                                                                                         <  2:595945/140‑1 (MQ=255)                aaaaaTAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGt                                                                                                                         <  1:201373/140‑1 (MQ=255)                 aaaaTAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGtc                                                                                                                        <  2:1026270/140‑1 (MQ=255)                   aaTAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGtctc                                                                                                                      <  2:936797/140‑1 (MQ=255)                       aCCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTtat                                                                                                                  >  1:676672/1‑140 (MQ=255)                            aaTAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATaaa                                                                                                             <  1:591413/140‑1 (MQ=255)                            aaTAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATaaa                                                                                                             <  2:676672/140‑1 (MQ=255)                                   aTGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATaaa                                                                                                             <  2:1218206/133‑1 (MQ=255)                                   aTGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATaaa                                                                                                             >  1:1218206/1‑133 (MQ=255)                                      ccAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATaaa                                                                                                             <  2:1155277/130‑1 (MQ=255)                                      ccAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATaaa                                                                                                             >  1:1155277/1‑130 (MQ=255)                                      ccAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAAcc                                                                                                           <  1:684240/132‑1 (MQ=255)                                      ccAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAAcc                                                                                                           >  2:684240/1‑132 (MQ=255)                                      ccAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCata                                                                                                   >  1:954878/1‑140 (MQ=255)                                                          aCTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGtt                                                                               <  1:671777/140‑1 (MQ=255)                                                               gTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACt                                                                          <  1:31555/140‑1 (MQ=255)                                                                        tgctgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACt                                                                          <  2:795857/131‑1 (MQ=255)                                                                        tgctgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACt                                                                          >  1:795857/1‑131 (MQ=255)                                                                          ctgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAg                                                               >  1:325618/1‑140 (MQ=255)                                                                          ctgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAg                                                               >  2:2083/1‑140 (MQ=255)                                                                          ctgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAg                                                               >  2:1106686/1‑140 (MQ=255)                                                                          ctgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAg                                                               >  2:855554/1‑140 (MQ=255)                                                                           tgGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGc                                                              >  2:75020/1‑140 (MQ=255)                                                                              tGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTg                                                           >  2:953890/1‑140 (MQ=255)                                                                               gACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGa                                                          >  1:14767/1‑140 (MQ=255)                                                                                  aaGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGAttt                                                       >  1:749122/1‑140 (MQ=255)                                                                                          atCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACAt                                               >  1:1005471/1‑140 (MQ=255)                                                                                               aaGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTaa                                          >  2:357963/1‑140 (MQ=255)                                                                                                aGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAg                                         <  2:749122/140‑1 (MQ=255)                                                                                                   tGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAAc                                      <  1:953890/140‑1 (MQ=255)                                                                                                      aaaGGCTAATTATTGTTGTGGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAgg                                   >  1:385547/1‑140 (MQ=255)                                                                                                                        tgGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACGGGATg                                <  2:321314/125‑1 (MQ=255)                                                                                                                        tgGCATCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACGGGATg                                >  1:321314/1‑125 (MQ=255)                                                                                                                             tCCAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAg            >  1:1123554/1‑140 (MQ=255)                                                                                                                              ccAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGt           <  1:855554/140‑1 (MQ=255)                                                                                                                              ccAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGt           <  1:357963/140‑1 (MQ=255)                                                                                                                               cAACGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTg          >  1:444956/1‑140 (MQ=255)                                                                                                                                 aCGGTCGGTCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGcc        <  2:385547/140‑1 (MQ=255)                                                                                                                                     tcggtCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTcc    <  2:325618/140‑1 (MQ=255)                                                                                                                                       ggtCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGt           <  2:535340/131‑1 (MQ=255)                                                                                                                                       ggtCACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCg  >  1:360874/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                         CATGCCGATCGCCAGAAAAATAACCAGAATAGGAATGCCAAGACGGGAAGAAAATGAACTAAGTAATATACTGCTGGTGACAAGGATGGATCCTAAGATGAAAAGGCTAATTATTGTTGTGGCATCCAACGGTCGGTTACTCCTGATTACGCTGTCTCTTATATAAACCCTACCATATTAGCGGCAGAGACAGCGTTTTACTTAGCCCTGAAGCGTGATTTTTTTACATTTTAAGAACAGGATGACCGCTAATCGTCAACTGAGTGCCTTCCCG  >  NC_000913/1241943‑1242216

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑