Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	313,897	C→A	20.4%	R64R (CGG→CGT)	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	313,897	0	C	A	20.4%	193.3 / 26.3	78	R64R (CGG→CGT)	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand):  ref base C (30/32);  new base A (13/3);  total (43/35)
Fisher's exact test for biased strand distribution p-value = 2.41e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTAC  >  minE/313827‑313962                                                                       |                                                                  cGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATc                                                                   >  1:4141687/1‑71 (MQ=255)    tGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCgg                                                                <  1:4271291/71‑1 (MQ=255)     gTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCgg                                                                >  1:4521836/1‑70 (MQ=255)      tCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACgat                                                               >  1:2845283/1‑68 (MQ=255)        gCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAgg                                                            >  1:4051084/1‑71 (MQ=255)         cTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGc                                                           <  1:254615/71‑1 (MQ=255)           aCCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGt                                                               <  1:1228423/65‑1 (MQ=255)           aCCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGt                                                               <  1:5230191/65‑1 (MQ=255)            ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACt                                                        >  1:1869642/1‑71 (MQ=255)            ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACt                                                        >  1:1876190/1‑71 (MQ=255)            ccTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCatt                                                        <  1:2516331/71‑3 (MQ=255)                cttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTg                                                    >  1:3984667/1‑71 (MQ=255)                 tttGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGc                                                   >  1:513687/1‑71 (MQ=255)                 tttGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGc                                                   >  1:2760457/1‑71 (MQ=255)                  ttGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATcc                                                                  <  1:2144178/55‑1 (MQ=255)                  gtGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCTGCTATACGATAAGCATTGGTGCg                                                  <  1:2343094/70‑1 (MQ=255)                   tGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCgg                                                 >  1:1375392/1‑70 (MQ=255)                    gAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGa                                                 <  1:5551224/70‑1 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGt                                                     >  1:1981234/1‑65 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTg                                                    >  1:3001702/1‑66 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTg                                                    >  1:1572776/1‑66 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTg                                                    >  1:536100/1‑66 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCggc                                                >  1:4205515/1‑68 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCGGcc                                               >  1:2215143/1‑71 (MQ=255)                     aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCGGcc                                               <  1:4455268/71‑1 (MQ=255)                     aaaTTACTCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGAc                                                <  1:5693475/70‑1 (MQ=255)                     aaaTTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGAcc                                               >  1:2856905/1‑71 (MQ=255)                       aTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                                       >  1:5356662/1‑61 (MQ=255)                       aTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                                       >  1:5135467/1‑61 (MQ=255)                       aTTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCg                                             <  1:2536126/71‑1 (MQ=255)                        ttACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCgg                                            <  1:2171877/71‑1 (MQ=255)                        ttACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCgg                                            <  1:4605918/71‑1 (MQ=255)                          aCGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCg                                                                 >  1:4701667/1‑48 (MQ=255)                          aCGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCg                                                                 >  1:4708280/1‑48 (MQ=255)                          aCGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCg                                                                 >  1:1544449/1‑48 (MQ=255)                          aCGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGa                                           <  1:2308429/70‑1 (MQ=255)                            gCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGc                                        >  1:139169/1‑71 (MQ=255)                             cTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCt                                       <  1:1138572/71‑1 (MQ=255)                               tCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCgg                                                                <  1:2520358/44‑1 (MQ=255)                               tCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTc                                      >  1:4285273/1‑70 (MQ=255)                                cAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCgg                                    >  1:3156673/1‑71 (MQ=255)                                cAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCgg                                    >  1:723581/1‑71 (MQ=255)                                cAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCg                                     <  1:5147570/70‑1 (MQ=255)                                 aGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTa                                                              >  1:1272766/1‑44 (MQ=255)                                 aGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTg                                                       >  1:2580969/1‑51 (MQ=255)                                 aGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTg                                                       >  1:1081018/1‑51 (MQ=255)                                 aGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTg                                                       >  1:887874/1‑51 (MQ=255)                                  ggATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGtt                                  >  1:1133632/1‑71 (MQ=255)                                   gATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtg                                 <  1:663073/71‑1 (MQ=255)                                     tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCa                                                          >  1:480781/1‑44 (MQ=255)                                     tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCa                                                          >  1:5552838/1‑44 (MQ=255)                                     tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:157456/71‑1 (MQ=255)                                     tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:4781529/71‑1 (MQ=255)                                     tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:2803890/71‑1 (MQ=255)                                     tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:4601654/71‑1 (MQ=255)                                       aTCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGa                              <  1:28518/70‑1 (MQ=255)                                       aTCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                                       >  1:1602933/1‑45 (MQ=255)                                       aTCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                                       >  1:180262/1‑45 (MQ=255)                                       aTCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                                       >  1:3751927/1‑45 (MQ=255)                                        tCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTa                                                              >  1:999242/1‑37 (MQ=255)                                        tCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTa                                                              >  1:4622318/1‑37 (MQ=255)                                          ccGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTg                          >  1:4630114/1‑71 (MQ=255)                                            gCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCa                        <  1:5687358/71‑1 (MQ=255)                                             cTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCag                       <  1:4744225/71‑1 (MQ=255)                                             cTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCag                       <  1:2953582/71‑1 (MQ=255)                                             cTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCag                       <  1:2961360/71‑1 (MQ=255)                                              tAACTTGAGGAGGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:4120954/62‑1 (MQ=255)                                              tAACTTGAGGACGAACTTCTGCGATCCGGTAGGCa                                                          >  1:2529336/1‑35 (MQ=255)                                              tAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGtt                                  >  1:464566/1‑59 (MQ=255)                                              tAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:2541091/62‑1 (MQ=255)                                              tAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:1502636/62‑1 (MQ=255)                                               aaCTTGAGGACGAACTTCTGCGGTCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCagag                     >  1:5040791/1‑71 (MQ=255)                                               aaCTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:2107542/61‑1 (MQ=255)                                                 cTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGAt                             >  1:4652778/1‑61 (MQ=255)                                                  ttGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg                               <  1:1048885/58‑1 (MQ=255)                                                    gAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGAt                             >  1:4345115/1‑58 (MQ=255)                                                       gACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCag                       <  1:2579096/61‑1 (MQ=255)                                                                cTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGt     <  1:3090748/70‑1 (MQ=255)                                                                  gCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGtttt           <  1:1925149/62‑1 (MQ=255)                                                                   cGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTtac  <  1:4439050/70‑1 (MQ=255)                                                                       |                                                                  CGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAGGTTCAGTTTTGACTGTTAC  >  minE/313827‑313962

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑