Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,481,795	G→A	Q128* (CAG→TAG)	emrY ←	tripartite efflux pump membrane subunit EmrY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,481,795	0	G	A	100.0%	130.3 / NA	35	Q128* (CAG→TAG)	emrY	tripartite efflux pump membrane subunit EmrY
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (28/7);  total (28/7)

GGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTGTGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCC  >  NC_000913/2481554‑2482033                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                               ggTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTg                                                                                                                                                                                                                                        <  2:1030828/250‑1 (MQ=255)     gATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAAtt                                                                                                                                                                                                                                   <  2:83040/251‑1 (MQ=255)                   ggTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCAt                                                                                                                                                                                                                     >  2:961131/1‑251 (MQ=255)                   ggTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCAt                                                                                                                                                                                                                     >  1:812492/1‑251 (MQ=255)                                                         gCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGc                                                                                                                                                                                                                        >  2:50007/1‑210 (MQ=255)                                                         gCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGc                                                                                                                                                                                                                        <  1:50007/210‑1 (MQ=255)                                                                gTCAGGACGATAACCCCCATAGGGACATTGATAAAAAATATCAACCCCCAGCAAAATTTATAAAAAATATACCCGCCCAATACCGCCCCAAATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAAAAAATTTTTTTTTTTCTGGGGGATATTTCCTTAAAAAAAAACTCTATGACAGTGAAATTACCGCCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTgg                                                                                                                                                                         <  1:554948/250‑1 (MQ=255)                                                                           aaTCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTac                                                                                                                                                             >  2:796130/1‑251 (MQ=255)                                                                                                 aaaaaTACCCACCCCCAGCAAAATTTATCAAAAATAAACCCCCCCAATACCGCCCCACATATGGGAGTGATAACCACGGTCATTGACCATAATGCCAGAGAAATTGTTTTTTTTTCGGGCGGATAATTCCTTAAAAAAAACCCCTATGACGGGGAAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGaaaa                                                                                                                                       <  1:961131/251‑1 (MQ=255)                                                                                                     atatCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTaa                                                                                                                                                                                                                  >  1:342959/1‑172 (MQ=255)                                                                                                     atatCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGCCTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGaaaaaaa                                                                                                                                    >  1:942515/1‑250 (MQ=255)                                                                                                        cccAACCCAAGATAAAGTTACCAAAAATATACCCGCCCAATATCGCCCCACATATCGGGGGTATAATCACGGTCATTGACCATAAGGCCAGAGCAAATTTTTTTTTTTCGGGCGAATAATTCTTAAATAAAAACCTCAAGGACAGGGAAATAAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTg                                                                                                                                <  1:796130/250‑1 (MQ=255)                                                                                                                      aaGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTaaaa                                                                                                                   >  2:473375/1‑250 (MQ=255)                                                                                                                                  atatAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTc                                                                                                      >  2:217381/1‑251 (MQ=255)                                                                                                                                        ccGCCCAATCTCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTAt                                                                                                >  1:1142136/1‑251 (MQ=255)                                                                                                                                                    ggCCCACATATCGGAGCGATAATCACGGTCATTGTCCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGCCTCTCAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACCTTAATGAAGACAGCGAAAAAAAAGTGAATGAAAGTAAAAATAAACTTAATTCGCCTATTCTTTGTGCCa                                                                                     >  1:460038/1‑250 (MQ=255)                                                                                                                                                       ccACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCt                                                                                 >  2:1175209/1‑251 (MQ=255)                                                                                                                                                                 gAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAAc                                                                        >  2:78735/1‑250 (MQ=255)                                                                                                                                                                    cGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAggg                                                                    >  2:1171709/1‑251 (MQ=255)                                                                                                                                                                         aTCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGc                                                               >  1:903599/1‑251 (MQ=255)                                                                                                                                                                            aCGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGaaaaaa                                                                                                                                     >  2:410445/1‑178 (MQ=255)                                                                                                                                                                                          tAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTacac                                              >  2:544438/1‑251 (MQ=255)                                                                                                                                                                                            aTGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACACCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGAGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACAcc                                             >  2:575381/1‑250 (MQ=255)                                                                                                                                                                                                 agagCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATCCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACg                                        >  1:553194/1‑250 (MQ=255)                                                                                                                                                                                                   agCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAgg                                     >  2:703079/1‑251 (MQ=255)                                                                                                                                                                                                     cAAATGTTCTTTTTTCTGGAGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCCAACGAGGTg                                   >  2:1136115/1‑251 (MQ=255)                                                                                                                                                                                                           ttCTTTTTTCGGGGGGATAATTCCTTAAAAATAACCTCTAAGACAGTGAAATAAACGCCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAAc                              <  1:338456/250‑1 (MQ=255)                                                                                                                                                                                                                   tCTGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGcc                     >  1:282359/1‑251 (MQ=255)                                                                                                                                                                                                                     tGGCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCtt                   >  2:303592/1‑251 (MQ=255)                                                                                                                                                                                                                      ggCGGATAATTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTc                  >  1:406299/1‑251 (MQ=255)                                                                                                                                                                                                                              aTTCCTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTg          >  2:835715/1‑251 (MQ=255)                                                                                                                                                                                                                                 ccTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATg       >  2:647665/1‑251 (MQ=255)                                                                                                                                                                                                                                  cTTAATAATAAACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGc      >  2:1012126/1‑251 (MQ=255)                                                                                                                                                                                                                                        aataaACTCTATGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGt                                    >  2:1112433/1‑215 (MQ=255)                                                                                                                                                                                                                                         ataaACTCTATGACAGTGGAATTAACGGCCACGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGCGATAACCCAGGTGCCTTCGTCTGTTGATGCTccc  >  1:349261/1‑248 (MQ=255)                                                                                                                                                                                                                                                  |                                                                                                                                                                                                                                               GGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACATTGATTAAAAATATCCAACCCCAGCTAAAGTTATCACAAATATAACCGCCCAATATCGGCCCACATATCGGAGCGATAATCACGGTCATTGACCATAATGCCAGAGCAAATGTTCTTTTTTCTGGCGGATAATTCCTTAATAATAAACTCTGTGACAGTGGAATTAACGGCCCCGCCATTAACCCCTGAACGACTCTAAAAAATATCAGCACATCAAGATTGGTCGATAGGCTACACATTAATGAAGACAGCGAAAAAAAAGTGACTGAAAGTAAAAATAATCTTAATTCGCCTATTCTTTGTGCCAACCTGCCAGTAACAGGGATCGCAATGGCATTTGCTACACCAAACGAGGTGATAACCCAGGTGCCTTCGTCTGTTGATGCTCCC  >  NC_000913/2481554‑2482033

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑