Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	883,396	C→T	intergenic (‑8/‑277)	ybjG ← / → mdfA	undecaprenyl pyrophosphate phosphatase/multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	883,396	0	C	T	100.0%	115.4 / NA	34	intergenic (‑8/‑277)	ybjG/mdfA	undecaprenyl pyrophosphate phosphatase/multidrug efflux pump MdfA/Na(+):H(+) antiporter/K(+):H(+) antiporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (14/20);  total (14/20)

AGATGTCCCATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAA  >  NC_000913/883159‑883640                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                     aGATGTCCCATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGAt                                                                                                                                                                                                                                         <  1:135912/251‑1 (MQ=255)      ccccATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTaaaa                                                                                                                                                                                                                                    <  1:283564/250‑1 (MQ=255)         cATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAggg                                                                                                                                                                                                                                 >  1:153885/1‑251 (MQ=255)                cAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAAt                                                                                                                                                                                                                          <  2:153885/251‑1 (MQ=255)                             ggCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGt                                                                                                                                                                                                             >  1:52395/1‑251 (MQ=255)                                                          aTCACCAGTTGACGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTa                                                                                                                                                                                <  2:52395/251‑1 (MQ=255)                                                           tCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGCGCGAGATTCAAATTTTCCAGCATAACTTCCTGACGCACAGTGATTAAAAGGGAGCCAATCCAGGCACGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTa                                                                                                                                                                                >  1:228338/1‑250 (MQ=255)                                                            cACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTaa                                                                                                                                                                               <  2:317523/250‑1 (MQ=255)                                                                   ggccgtggggCTGTAAGCCCCCACAAACAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCAGCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCAt                                                                                                                                                                       <  2:221873/242‑1 (MQ=255)                                                                                        cacaACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAgg                                                                                                                                                                                                                     >  2:158978/1‑184 (MQ=255)                                                                                        cacaACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAgg                                                                                                                                                                                                                     <  1:158978/184‑1 (MQ=255)                                                                                               aaaGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAAGACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGttt                                                                                                                                           <  1:243173/251‑1 (MQ=255)                                                                                                             aGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGc                                                                                                                                                                            >  1:179250/1‑204 (MQ=255)                                                                                                             aGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGc                                                                                                                                                                            <  2:179250/204‑1 (MQ=255)                                                                                                                        cacGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCAt                                                                                                                   >  1:94125/1‑250 (MQ=255)                                                                                                                           ggTAATCAAATCTTTAGCAATAAAAATCGCAAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGCGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGCATAAAGTGAAGGTTAAACTGAGTAAAGCGGCATAGTCTTATTTCCCTCAAACGGCTAGTTTACGGTGGGTGCTTGTAACGGGCATAGGt                                                                                                               >  2:390728/1‑251 (MQ=255)                                                                                                                              aaTCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTta                                                                                                             <  2:94125/250‑1 (MQ=255)                                                                                                                                   attCTTTTGCAATAAAAATCGCCAACGAGAGCATCAACTGAGCCGAGTCTGGCTTCGCGTTAATAAGAGATAATAGATAGAGATTCAAATTTTCTAGCATAACTTCCTGACGCAAAGTGATTAAAAGTGATCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTtaaataaa                                                                                                       <  2:367694/249‑1 (MQ=255)                                                                                                                                          aGCAATAAACCTCGCCAACGAGATCATCCACGGTGCCGAGTCTGGCGTCGAGTTAATAAGAGAGAATAGAGAGCGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAAAGGGCTTAGGTTAATTAAAACTTaa                                                                                                 >  2:73452/1‑250 (MQ=255)                                                                                                                                                      cGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGGAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCt                                                                                    >  1:22163/1‑251 (MQ=255)                                                                                                                                                          aaCGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTa                                                                                                  <  1:158220/233‑1 (MQ=255)                                                                                                                                                          aaCGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTa                                                                                                  >  2:158220/1‑233 (MQ=255)                                                                                                                                                             gagaTCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCg                                                                             >  1:147190/1‑251 (MQ=255)                                                                                                                                                                        cGGAGCCGAGTCTGGCGGCGGGTTAATAAGAGAGAATAGAGAGAGATGCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTaa                                                                  <  2:74388/251‑1 (MQ=255)                                                                                                                                                                                       cGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCg                                                   >  1:19538/1‑251 (MQ=255)                                                                                                                                                                                          cgcgTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTgg                                                <  1:243712/251‑1 (MQ=255)                                                                                                                                                                                          cgcgTTAATAAGAGAGAATAGAGAGAGATTCAAATTTGCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTg                                                 <  2:378765/250‑1 (MQ=255)                                                                                                                                                                                                aataaGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGcc                                                                                                                                                                                                                             <  2:374598/72‑1 (MQ=255)                                                                                                                                                                                                aataaGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGcc                                                                                                                                                                                                                             >  1:374598/1‑72 (MQ=255)                                                                                                                                                                                                       gagaATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGTCATAGGTTAAATAAAACTTAAAGAAAGCTTATCTATACTCGTAATAATGTAAGAATTTGCTTAACCGTGGTTTCAGCTACaaa                                   <  1:188824/251‑1 (MQ=255)                                                                                                                                                                                                                        cAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGCTGAGAATAACGCGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCAGTTTACGGTGGGTGGTTGTAACGGGCATAGATTAAATAAAACTTAAAGAGAGCGTAGATATACTCGTAATAATGTAAGAATGTGCTTAAACGTGGTTTCAGCTACACAATTCGCTTTCTCGTTa                   >  1:278037/1‑250 (MQ=255)                                                                                                                                                                                                                                    cATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGGTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTGAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCGTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTttat      <  2:428605/251‑1 (MQ=255)                                                                                                                                                                                                                                       aaattCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCGTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTATCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTttatta    <  2:151784/247‑1 (MQ=255)                                                                                                                                                                                                                                        aCTTCCTGACGCAAAGGGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTaaa  <  1:406967/251‑1 (MQ=255)                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                     AGATGTCCCATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAAA  >  NC_000913/883159‑883640

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑