Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,481,400	T→A	S259S (TCA→TCT)	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	2,481,400	0	T	A	100.0%	102.6 / NA	34	S259S (TCA→TCT)	emrY	tripartite efflux pump membrane subunit EmrY
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (9/25);  total (9/25)

CAACCGCATGTCTATTTTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCTGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACAT  >  NC_000913/2481160‑2481644                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                     caacCGCATGTCTATTGTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACt                                                                                                                                                                                                                                            <  1:224960/251‑1 (MQ=255)  aacCGCATGTCTATTTTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTc                                                                                                                                                                                                                                           <  1:960988/251‑1 (MQ=255)    ccGCATGTCTATTTTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACCGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTccc                                                                                                                                                                                                                                         <  1:163462/251‑1 (MQ=255)         ggTCTATTTTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCGTAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATg                                                                                                                                                                                                                                    <  1:384265/250‑1 (MQ=255)                   gttgCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAagag                                                                                                                                                                                                                           <  1:947291/250‑1 (MQ=255)                      gCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGTGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATc                                                                                                                                                                                                                        <  1:935739/250‑1 (MQ=255)                                ccTAACAAAGGTGAAATTAATAGTGGCATGATTCCGAGGGGCGCATAAGCAAGTCCGGCCCATATCGCATTAGTCCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTGAAACAAACTGAGATCAAGAGTCGGGTTCTCAGATGTCGACTCCCAAATGACTATAGAGACTAGAGAAATaa                                                                                                                                                                                                              <  2:630576/250‑1 (MQ=255)                                      aaaGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGAtac                                                                                                                                                                                                       >  1:726442/1‑251 (MQ=255)                                                 tAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAat                                                                                                                                                                                             <  2:156919/250‑1 (MQ=255)                                                  aaTAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAatat                                                                                                                                                                                           >  2:43410/1‑251 (MQ=255)                                                   aTAGTGGCATGAAGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGTCTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAAtatt                                                                                                                                                                                          <  2:875774/251‑1 (MQ=255)                                                                              aaGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATcc                                                                                                                                                               <  1:992316/251‑1 (MQ=255)                                                                                  aaGTCCGGACCATATCGCATTATACCCCATCGTTTCCTGGGGTAACTGCGGCATAAGGACGATAGCTCCAGAGTAAAATAAATACGCGCATGTGATACACAAAATACCAATGGAGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCGCAGTGGTCGACTCCCAAATGACTAAAGAGATCAGAAAAATAACTGATACTACTGTTAATATTATTATTGAACTCGAGTTGAACCAAACCAgtg                                                                                                                                                           >  2:30611/1‑249 (MQ=255)                                                                                               atCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTACAAAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAACGAGATCAGAGAAATAACTGATACAACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATAGCGACCTTTATc                                                                                                                                              >  1:652436/1‑251 (MQ=255)                                                                                                  gCATTATACCCCACCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAg                                                                                                                                           <  1:434433/251‑1 (MQ=255)                                                                                                          ccccATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAAttt                                                                                                                                   <  2:328631/251‑1 (MQ=255)                                                                                                                cGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGATGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGc                                                                                                                             <  2:921895/251‑1 (MQ=255)                                                                                                                     ccTGGAGTAACTGCGGCATAAGGAAGATCGCTCAAGAGTAAAATAAATACGCGCATGTGATACGCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGccacc                                                                                                                         <  2:866361/250‑1 (MQ=255)                                                                                                                                                            aaaaGAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAAGCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCAt                                                                                  <  2:236378/250‑1 (MQ=255)                                                                                                                                                             aaataaatACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCAttt                                                                                <  1:499968/251‑1 (MQ=255)                                                                                                                                                              aataaataCGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCAtttt                                                                               <  1:30611/251‑1 (MQ=255)                                                                                                                                                                 aaataCGCGAATGTTCTCCTCCCAATACCAATGGTGAAGTTAACGGCCTTACACCAACAGAGCTCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACAAATCCTCCTGTTAATATTATTATTGGACACGCGTTGAACCAACCCAGATCGCGCCCTTTATCACGAATAATTTGCAAGCACCCACCACCGAGCACTAACAGGGCCAGTCCTGGAAGATTCCttttaac                                                                            >  2:142458/1‑248 (MQ=255)                                                                                                                                                                   ataCGCGCATGTTATACTCACAATACCAATGGTGAAGGTACGGGACTTAAACAAACTTAGATATAGAATCGTGTGCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTTATACGACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAATCCACCAACTCCGAGCACTAACAGGGTCAGTCCTGGTAGATGCATTTTGACCg                                                                          <  2:967127/251‑1 (MQ=255)                                                                                                                                                                           aTGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGtc                                                                  <  1:765487/251‑1 (MQ=255)                                                                                                                                                                           aTGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTACCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGtc                                                                  >  1:134361/1‑251 (MQ=255)                                                                                                                                                                           aTGTGATACTCACAAGACCAATGGTGAAGTTACCGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGTCTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGtc                                                                  <  2:619021/251‑1 (MQ=255)                                                                                                                                                                              tgATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGtctc                                                                >  2:53677/1‑250 (MQ=255)                                                                                                                                                                                aTACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCTGTGAAGTCTCAGt                                                             <  2:428978/251‑1 (MQ=255)                                                                                                                                                                                     cacaATACCAATGGTGAAGGTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTtctc                                                        <  1:620854/251‑1 (MQ=255)                                                                                                                                                                                                  gTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTtaagtaa                                           <  1:43410/251‑1 (MQ=255)                                                                                                                                                                                                             ggACTTAACGAAACAGATATCAAGAATCGGGTTCTCAGAGGGCGACCCCCAAATGACTAAAGAGATCATAGAAATATCTGATACTACCTTTAATATGATTATTGTACTGGAGTTGAACCAATCCAGATCGCGACCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCATTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCGCTTCCTTTAAGGAAGTTGAAGCATa                                <  2:266013/251‑1 (MQ=255)                                                                                                                                                                                                                                  aggAATCGGGTTCGCAGAGGTCGACTCCCAAATGACTACAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTACCAGGGTCAGTCCTGGAAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAATTATGGTTAAGCATAATGTCAGGTCGATAATcacac           >  2:183562/3‑247 (MQ=255)                                                                                                                                                                                                                                        cGGGTTCTCAGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAggg      <  1:53677/250‑1 (MQ=255)                                                                                                                                                                                                                                           gTTCTCAGAGGTCGAATCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACAt  >  1:739454/1‑251 (MQ=255)                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                     CAACCGCATGTCTATTTTGTTGCCATAACGTCCTATCAAAGGTGAAATTAATAGTGGCATGATGCCGATGGGCGCATAAGCAAGTCCGGCCCATATCGCATTATACCCCATCGTTTCCTGGAGTAACTGCGGCATAAGGACGATCGCTCCAGAGTAAAATAAATACGCGCATGTGATACTCACAATACCAATGGTGAAGTTACGGGACTTAAACAAACTGAGATCAAGAATCGGGTTCTCTGAGGTCGACTCCCAAATGACTAAAGAGATCAGAGAAATAACTGATACTACTGTTAATATTATTATTGTACTCGAGTTGAACCAATCCAGATCGCGCCCTTTATCAAGCATAATTTGCAAGCCACCAACACCGAGCACTAACAGGGTCAGTCCTGGTAGATTCATTTTGACCGGTGAAGTCTCAGTTTCTCTTCCTTTAAGTAAGGTTAAGCATAATGTCAGGACGATAATCCCCATAGGGACAT  >  NC_000913/2481160‑2481644

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑