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%	96.6 / NA	31	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 (13/18);  total (13/18)

CGGAAAAAGATGTCCCATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAA  >  NC_000913/883152‑883639                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                    cGGAAAAAGATGTACCATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACAACGGTAATCAAATCTTTAGCAATACAAATCGCCAACGAGATCATCAACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGCATAGAGCGAGATTCAAATTTTCCAGCATAACTTCCTGACGcc                                                                                                                                                                                                                                               >  2:233836/1‑250 (MQ=255)                   cGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTAGCCGTTGTGCTGTAAGCCCCCACACCCACAGTACCACGGCCAGCAACGGCACCACGGTAATCAACTCTTTAGCAATAAAAATCGCAAACGAGATCATCCACGGAGCCGAGGCTGGCGTCGAGTTAATAAGAAAGATTAGAGAGTGATTCAAATTTTCCAGCATAACTTCATGACGCAAAGTGATTAAAAGGGAGc                                                                                                                                                                                                                             >  2:41736/1‑251 (MQ=255)                                        taCCGCCAGCGCGATAGCGATTTTTTTCACCAGGTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTg                                                                                                                                                                                                          <  2:446745/248‑1 (MQ=255)                                                   cgATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACCGGCAAGTCGTTGAGAATAAAGTGc                                                                                                                                                                                              >  1:20690/1‑250 (MQ=255)                                                     aTAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAgg                                                                                                                                                                                           >  1:178629/1‑251 (MQ=255)                                                             ttttATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACt                                                                                                                                                                                    <  2:71633/250‑1 (MQ=255)                                                                tATCACCAGGTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAAGCAAATCTTTATCAATAAAAATCGCCAACGAGAGCATCCACGGAGCCGAGTCTGGCGTCGCGTTAAGAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAGCTTCCTTACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTggg                                                                                                                                                                                 <  2:436964/250‑1 (MQ=255)                                                                 aTCACCAGTTGCCGTTGTGCTGGAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTGCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTa                                                                                                                                                                               <  2:441175/251‑1 (MQ=255)                                                                   cACCAGTAGCCGTTGGGCTTTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAAGCAAATCTTTAGCAATAAAAATCGCCAACGAGATCAGCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTaaa                                                                                                                                                                             <  2:316769/251‑1 (MQ=255)                                                                              gTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTc                                                                                                                                                                  <  1:407101/251‑1 (MQ=255)                                                                                 gtgCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCtt                                                                                                                                                                <  1:229767/250‑1 (MQ=255)                                                                                          gCCCCCAAAACAAAATTACCAAGGCTAGCAAAGGCACCACGGGAAGCAAATCGTTAGCAATAAAAATCGCCAACGAGAACAGCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATTGAGATAGATTCAAATTTTCCAGCATAACTTCATGACGCAAAGTGATTAAAAGGGAGCAAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCtaa                                                                                                                                                      <  2:159830/251‑3 (MQ=255)                                                                                                acaACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGc                                                                                                                                                >  1:15064/1‑251 (MQ=255)                                                                                                               cGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACggtgggg                                                                                                                                 >  1:207518/1‑250 (MQ=255)                                                                                                                  ccAGCAACGGCTCCACGGTAATGAAAGTTTTAGCAATAAAAATCGCCAACGAGATCAGCCACGGTGCCCAGGCTGGCGGCGCGGTAATAAGAGAGAATAGAGAGAGATTCAAAGTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCAGCGTCTTATCTCCCTCAAGCGGCCTGTTTACGGTGGGTGAt                                                                                                                              <  2:497686/251‑1 (MQ=255)                                                                                                                       aaCGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGAtttta                                                                                                                          >  2:138762/1‑247 (MQ=255)                                                                                                                             accacGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGc                                                                                                                    >  1:230060/1‑250 (MQ=255)                                                                                                                                               ttAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACt                                                                                                   <  1:354603/249‑1 (MQ=255)                                                                                                                                                       aaaaaTCGACAACGAGATCAACCACGGAGCCGAGTCTGGCGTCGCGGTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCATCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGTCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGc                                                                                         <  1:402509/251‑1 (MQ=255)                                                                                                                                                             cGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGc                                                                                    <  1:233836/250‑1 (MQ=255)                                                                                                                                                                     agaTCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGt                                                                           <  1:149345/251‑1 (MQ=255)                                                                                                                                                                             cACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGt                                                                   >  2:162076/1‑251 (MQ=255)                                                                                                                                                                                   gCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGGTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAAt                                                             <  2:207518/251‑1 (MQ=255)                                                                                                                                                                                                   cgTTAATAAGAGAGAGTAGAGAGAGATTCAAATTTTCCAGCATCACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGtt                                             >  2:75626/1‑251 (MQ=255)                                                                                                                                                                                                   cgTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTaataat                                                                     >  1:51053/1‑227 (MQ=255)                                                                                                                                                                                                   cgTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTaataat                                                                     <  2:51053/227‑1 (MQ=255)                                                                                                                                                                                                        ataaGAGAGAATATAGAGAGAGTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTta                                                                                                            <  2:247055/183‑1 (MQ=255)                                                                                                                                                                                                        ataaGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTta                                                                                                            >  1:247055/1‑183 (MQ=255)                                                                                                                                                                                                          aaGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCt                                       <  1:367457/250‑1 (MQ=255)                                                                                                                                                                                                                              tCAAATTTTCCAGCATAACTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGtt                   <  2:20690/250‑1 (MQ=255)                                                                                                                                                                                                                                               aCTTCCTGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTaa  >  1:94800/1‑250 (MQ=255)                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                    CGGAAAAAGATGTCCCATCGTCCAGGACACAAACAGGCTGACCGCCAGCGCGATAGCGATTTTTATCACCAGTTGCCGTTGTGCTGTAAGCCCCCACAACCAAAGTACCACGGCCAGCAACGGCACCACGGTAATCAAATCTTTAGCAATAAAAATCGCCAACGAGATCATCCACGGAGCCGAGTCTGGCGTCGCGTTAATAAGAGAGAATAGAGAGAGATTCAAATTTTCCAGCATAACTTCCCGACGCAAAGTGATTAAAAGGGAGCCAATACAGGCAAGTCGTTGAGAATAAAGTGCAGGTTAAACTGGGTAAAGCGGCATCGTCTTATTTCCCTCAAGCGGCCTGTTTACGGTGGGTGATTGTAACGGGCATAGGTTAAATAAAACTTAAAGAAAGCGTAGCTATACTCGTAATAATGTAAGAATGTGCTTAACCGTGGTTTCAGCTACAAAATTCGCTTTCTCGTTAGCTGCGCTTTTATTAA  >  NC_000913/883152‑883639

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑