Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,041,278	G→A	intergenic (+160/‑97)	msrQ → / → zinT	membrane‑bound flavocytochrome MsrQ/metal‑binding protein ZinT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,041,278	0	G	A	96.9%	105.7 / ‑5.8	32	intergenic (+160/‑97)	msrQ/zinT	membrane‑bound flavocytochrome MsrQ/metal‑binding protein ZinT
Reads supporting (aligned to +/- strand):  ref base G (1/0);  new base A (18/13);  total (19/13)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

ACTGCTTTTAGCCTTACGGTATAAGAAGTTGCGTTCCCTTTTTAACCGGTTACGCAAGCAGGTTCACAACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAGAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGAACAAAAAGCTGCTAATGGTGTTTTTGATGATGCCA  >  NC_000913/2041034‑2041519                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                  aCTGCTTTTAGCCTTACGGTATAAGAAGTTGCGTTCCCTTTTTAACCGGTTACGCAAGCAGGTTCACAACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGc                                                                                                                                                                                                                                              <  1:441210/250‑1 (MQ=255)               tACGGTATAAGAAGTTGCGTTCCCTTTTTCACCGGTTACGCAAGCAGGTTCACAACAAATTATATGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCCGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTAAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGttcac                                                                                                                                                                                                                               >  2:35979/1‑248 (MQ=255)                         gaagGTGCGTTCCCGTTTTAACCGGTTACGCAAGCAGGTTCACAACTAATTATCTGTATAACTTCATATGGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAgttgt                                                                                                                                                                                                                     <  2:367624/251‑1 (MQ=255)                              tGCGTTCCCTTTTTAACCGGTTACGCAAGCAGGTTCACAACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCa                                                                                                                                                                                                                 <  2:696387/250‑1 (MQ=255)                                 gTTCCCTTTTTAACCGGTTACGCAAGCAGGTTCACAACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCAtttt                                                                                                                                                                                                             >  2:163830/1‑251 (MQ=255)                                            aacgtgTTATGCAAGCAGGGTAACAACAAACTATCTGTATAACTTCATATAGCCGACAAATGT‑CGCGTTATCCCTGCCGGAGGGGGTGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTGCGTTTGTCATCAACCTCAAATCACCAAAAGAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCGCTCGTTTCCGAAGAGTTGTTGCATGTTGCTATATGTTa                                                                                                                                                                                                  <  2:98467/246‑1 (MQ=255)                                                       cAAGCAGGTTCACAAAAAATAATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGCTGTGGCGAGAGCGCCATATCCGGCATCCACAGATCGCCTCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCACAATAATTTATTTTATTTAAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTACTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACAt                                                                                                                                                                                       >  2:813698/1‑251 (MQ=255)                                                                 cacaACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACAcatcat                                                                                                                                                                             >  2:152808/1‑251 (MQ=255)                                                                 cacaACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACAcatca                                                                                                                                                                              <  2:41437/250‑1 (MQ=255)                                                                     acaaATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATAc                                                                                                                                                                         <  1:83457/251‑1 (MQ=255)                                                                              cTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAActct                                                                                                                                                                >  1:209480/1‑251 (MQ=255)                                                                                  ataACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTgga                                                                                                                                                             <  2:194510/250‑1 (MQ=255)                                                                                         cATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACt                                                                                                                                                      <  1:663493/250‑1 (MQ=255)                                                                                                     aaa‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTc                                                                                                                                         >  2:6243/1‑251 (MQ=255)                                                                                                                                 ggCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCttt                                                                                                                >  1:610916/1‑249 (MQ=255)                                                                                                                                                                       ggTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGGAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGTCGATGCGTCTTTACAAACTGTCTGTTGCTGTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGt                                                                        <  2:354351/251‑1 (MQ=255)                                                                                                                                                                        gTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGtc                                                                       >  1:435592/1‑251 (MQ=255)                                                                                                                                                                                     tGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACgg                                                          >  1:640219/1‑251 (MQ=255)                                                                                                                                                                                        catcaACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCttt                                                                                 <  2:233837/225‑1 (MQ=255)                                                                                                                                                                                        catcaACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCttt                                                                                 >  1:233837/1‑225 (MQ=255)                                                                                                                                                                                        catcaACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCa                                                        <  1:526757/250‑1 (MQ=255)                                                                                                                                                                                        catcaACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCa                                                        >  1:82538/1‑250 (MQ=255)                                                                                                                                                                                              ccTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCtt                                                 >  1:91532/1‑251 (MQ=255)                                                                                                                                                                                              ccTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCtt                                                 >  2:590127/1‑251 (MQ=255)                                                                                                                                                                                                  aaaTCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACa                                             <  1:154619/251‑1 (MQ=255)                                                                                                                                                                                                           aaaTAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATTCTCTTGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGTGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGATGTCGa                                     >  2:144011/1‑250 (MQ=255)                                                                                                                                                                                                            aataatTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGACGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCgcac                                   >  2:275899/1‑248 (MQ=255)                                                                                                                                                                                                                              aaTAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGAACAAAAAGCTGCTAATGgtg                 >  1:755437/1‑251 (MQ=255)                                                                                                                                                                                                                               aTAAGCTAGATAAGTAGAACTGAGAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGAACAAAAAGCTGCTAATGgtgt                >  1:234712/1‑251 (MQ=255)                                                                                                                                                                                                                                tAAGATAGATAAGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGAACAAAAAGCTGCTAATgtagtt               >  1:161125/1‑246 (MQ=255)                                                                                                                                                                                                                                          aaGTAGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACACTATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGCTTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGACCAAAACGCTGCTAATGGAGTTTTTgatgatt     >  2:785959/1‑250 (MQ=255)                                                                                                                                                                                                                                              aGAACTGAAAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGAACAAAAAGCTGCTAATGGTGTTTTTGATGATGCCa  <  2:82538/250‑1 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                  ACTGCTTTTAGCCTTACGGTATAAGAAGTTGCGTTCCCTTTTTAACCGGTTACGCAAGCAGGTTCACAACAAATTATCTGTATAACTTCATATTGCCGACAAA‑GTACGCGTTATCCCTGCCGGATGTGGCGCGAGCGCCCTATCCGGCATACACAGATCGCATCAGGTTATGTTTCGTTTGTCATCAACCTCAAATCACCAAAATAATTTATTTTATTTCAATAAGATAGATAAGTAGAACTGAGAAAGCCATGCTCTCGTTTCCTAAGAGTTGTTGCATTTTGCTATATGTTACAATATAACATTACACATCATATACATTAACTCTGGAGGAAACTGTTTTGGCGATTCGTCTTTACAAACTGGCTGTTGCTTTAGGTGTCTTTATTGTTAGCGCTCCTGCCTTTTCGCATGGTCATCACTCACACGGCAAACCCTTAACAGAGGTCGAACAAAAAGCTGCTAATGGTGTTTTTGATGATGCCA  >  NC_000913/2041034‑2041519

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑