Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,426,288	G→A	intergenic (+206/‑166)	ydaY → / → tmpR	pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,426,288	0	G	A	100.0%	204.5 / NA	63	intergenic (+206/‑166)	ydaY/tmpR	pseudogene, Rac prophage,Phage or Prophage Related/Rac prophage, pseudogene, tail protein family,Phage or Prophage Related, putative alpha helix protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/34);  total (29/34)

CTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAGTTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACT  >  NC_000913/1426152‑1426417                                                                                                                                         |                                                                                                                                  cTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAatt                                                                                                                                 >  2:416192/1‑139 (MQ=255)   ggggTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAattgt                                                                                                                               >  2:72052/1‑139 (MQ=255)     ggTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTa                                                                                                                             >  1:520736/1‑139 (MQ=255)      gTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTaa                                                                                                                            <  1:561523/139‑1 (MQ=255)             tgcctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTa                                                                                                                     <  2:316051/139‑1 (MQ=255)             tgcctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTa                                                                                                                     <  2:1014411/139‑1 (MQ=255)             tgactttTTCTCTGATAGAGTTAAATTAATATTTAGCCGCTCATCTGATATTGATTGAGCGAGTTGTATTTGGAGCAGTGATCTTTTCACTGGATGACCAGTATTTTTATGAGCAGTGTGTGTAATTGTTAATTAAGTa                                                                                                                     <  2:906007/136‑1 (MQ=255)               cctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                   <  1:853031/139‑1 (MQ=255)               cctttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                   <  1:72052/139‑1 (MQ=255)                 tttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                                 <  2:991292/139‑1 (MQ=255)                 tttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                                 <  2:520736/139‑1 (MQ=255)                 tttATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACAct                                                                                                                 <  2:216501/139‑1 (MQ=255)                       tctGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTa                                                                                                           <  1:180020/139‑1 (MQ=255)                         tGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                         >  2:991177/1‑139 (MQ=255)                         tGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACa                                                                                                         <  2:483658/139‑1 (MQ=255)                          gACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                        >  2:1048322/1‑139 (MQ=255)                               agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTa                                                                                                                     <  1:816287/121‑1 (MQ=255)                               agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTa                                                                                                                     >  2:816287/1‑121 (MQ=255)                               agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                                   <  1:1048322/139‑1 (MQ=255)                               agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                                   >  2:679695/1‑139 (MQ=255)                               agaTAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGAtg                                                                                                   >  1:826316/1‑139 (MQ=255)                                         atatTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTc                                                                                         >  2:789833/1‑139 (MQ=255)                                               aGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCGCTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                   <  1:726974/107‑1 (MQ=255)                                               aGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                   >  2:726974/1‑107 (MQ=255)                                                  cACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTttaattaa                                                                                <  1:789833/139‑1 (MQ=255)                                                    cTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAAt                                                                              >  1:501178/1‑139 (MQ=255)                                                            gTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTg                                                                                                              <  1:966098/99‑1 (MQ=255)                                                            gTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTg                                                                                                              >  2:966098/1‑99 (MQ=255)                                                                     gaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                        >  2:795600/1‑96 (MQ=255)                                                                     gaGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACag                                                                                                        <  1:795600/96‑1 (MQ=255)                                                                      aGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                   >  1:953241/1‑84 (MQ=255)                                                                      aGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTaca                                                                                                                   <  2:953241/84‑1 (MQ=255)                                                                       gcgcGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGaa                                                           >  2:1044077/1‑139 (MQ=255)                                                                            aTGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCt                                                                                        <  1:315173/105‑1 (MQ=255)                                                                            aTGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCt                                                                                        >  2:315173/1‑105 (MQ=255)                                                                                         agggATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGGTGGTGTCTTTAATTAAAt                                                                              >  2:860595/4‑102 (MQ=255)                                                                                         aGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAAt                                                                              <  1:860595/102‑1 (MQ=255)                                                                                         aGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCg                                         >  1:950877/1‑139 (MQ=255)                                                                                           tGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTa                                       >  1:798959/1‑139 (MQ=255)                                                                                           tGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTa                                       <  1:679695/139‑1 (MQ=255)                                                                                            gATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTaa                                      <  1:979751/139‑1 (MQ=255)                                                                                             aTCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatga                                                                        >  2:448484/1‑104 (MQ=255)                                                                                             aTCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatga                                                                        <  1:448484/104‑1 (MQ=255)                                                                                               cTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCg                                   <  2:826316/139‑1 (MQ=255)                                                                                               cTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCg                                   <  2:798959/139‑1 (MQ=255)                                                                                                tttGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGc                                  <  2:501178/139‑1 (MQ=255)                                                                                                 ttGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                 <  1:758442/139‑1 (MQ=255)                                                                                                 ttGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                 <  2:628627/139‑1 (MQ=255)                                                                                                     aCTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTatat                             >  1:572053/1‑139 (MQ=255)                                                                                                      cTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATc                            <  1:991177/139‑1 (MQ=255)                                                                                                         gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                 <  2:577834/131‑1 (MQ=255)                                                                                                         gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCt                                 >  1:577834/1‑131 (MQ=255)                                                                                                         gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac                         >  2:373853/1‑139 (MQ=255)                                                                                                         gATGACCAGTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATctac                         >  1:530501/1‑139 (MQ=255)                                                                                                                 gTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATgg                                                                                             >  2:115756/1‑63 (MQ=255)                                                                                                                 gTATTTTCAGGAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATgg                                                                                             <  1:115756/63‑1 (MQ=255)                                                                                                                          ggAGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGaaa        >  2:66171/1‑139 (MQ=255)                                                                                                                            aGCAGTGTGTGTAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAAcc      >  2:680280/1‑139 (MQ=255)                                                                                                                                gtgtgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGatgatg                                                                      <  1:474033/71‑1 (MQ=255)                                                                                                                                gtgtgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGatgatg                                                                      >  2:474033/1‑71 (MQ=255)                                                                                                                                gtgtgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACt  >  2:332727/1‑139 (MQ=255)                                                                                                                                   tgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                                       >  2:1066958/1‑67 (MQ=255)                                                                                                                                   tgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCgatgat                                                                       <  1:1066958/67‑1 (MQ=255)                                                                                                                                   tgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTaa                                      <  2:122351/100‑1 (MQ=255)                                                                                                                                   tgtgtAATTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTaa                                      >  1:122351/1‑100 (MQ=255)                                                                                                                                         |                                                                                                                                  CTGGGGTGCCTTTGCCTTTATCTCTGACAGAGATAAATGAATATTTAGCCACTCATCCGGTATTGATTGAGCGCGATGAATTTGAAGCAGTGATCTTTGCACTGGATGACCAGTATTTTCAGGAGCAGTGTGTGTAGTTGTTAATTACGTACACTCTGTTACAGAGATGTGATGGTGTCTTTAATTAAATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACT  >  NC_000913/1426152‑1426417

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑