Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	313,882	A→G	20.0%	R69R (CGT→CGC)	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	313,882	0	A	G	20.0%	186.0 / 41.5	95	R69R (CGT→CGC)	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand):  ref base A (39/37);  new base G (13/6);  total (52/43)
Fisher's exact test for biased strand distribution p-value = 2.07e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01

ACACCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAG  >  minE/313817‑313943                                                                  |                                                              acacCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAAc                                                          <  1:5298/71‑1 (MQ=255)    ccTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACg                                                             <  1:3472635/65‑1 (MQ=255)      tGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGa                                                               >  1:1226219/1‑61 (MQ=255)      tGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTc                                                       <  1:268844/69‑1 (MQ=255)      tGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTc                                                       <  1:390887/69‑1 (MQ=255)       gCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGaa                                                           >  1:5434545/1‑64 (MQ=255)       gCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGaa                                                           >  1:3313676/1‑64 (MQ=255)        cTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTg                                                     >  1:4422835/1‑69 (MQ=255)        cTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTg                                                     >  1:3209556/1‑69 (MQ=255)        cTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTg                                                     >  1:1906437/1‑69 (MQ=255)           cGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATc                                                >  1:4141687/1‑71 (MQ=255)             acatCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACt                                                         <  1:5261606/57‑1 (MQ=255)             acatCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACt                                                         <  1:4917131/57‑1 (MQ=255)              tGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCgg                                             <  1:4271291/71‑1 (MQ=255)               gTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCgg                                             >  1:4521836/1‑70 (MQ=255)               atCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGc                                                    <  1:3393494/62‑1 (MQ=255)                tCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACgat                                            >  1:2845283/1‑68 (MQ=255)                  gCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACtt                                                        <  1:2650266/56‑1 (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)                      ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAAc                                                          <  1:5564794/50‑1 (MQ=255)                      ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAAc                                                          <  1:2626268/50‑1 (MQ=255)                      ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACt                                     >  1:1869642/1‑71 (MQ=255)                      ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACt                                     >  1:1876190/1‑71 (MQ=255)                      ccTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCatt                                     <  1:2516331/71‑3 (MQ=255)                         tcttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACt                                                         >  1:1237771/1‑48 (MQ=255)                          cttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACtt                                                        >  1:4605907/1‑48 (MQ=255)                          cttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACtt                                                        >  1:3856700/1‑48 (MQ=255)                          cttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTg                                 >  1:3984667/1‑71 (MQ=255)                           tttGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGc                                >  1:2760457/1‑71 (MQ=255)                           tttGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGc                                >  1:513687/1‑71 (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                                 >  1:536100/1‑66 (MQ=255)                               aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTg                                 >  1:1572776/1‑66 (MQ=255)                               aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCggc                             >  1:4205515/1‑68 (MQ=255)                               aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCGGcc                            <  1:4455268/71‑1 (MQ=255)                               aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTGCGGcc                            >  1:2215143/1‑71 (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                                              >  1:1544449/1‑48 (MQ=255)                                    aCGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCg                                              >  1:4708280/1‑48 (MQ=255)                                    aCGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCg                                              >  1:4701667/1‑48 (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                                    >  1:887874/1‑51 (MQ=255)                                           aGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTg                                    >  1:1081018/1‑51 (MQ=255)                                           aGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTg                                    >  1:2580969/1‑51 (MQ=255)                                            ggATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGtt               >  1:1133632/1‑71 (MQ=255)                                             gATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtg              <  1:663073/71‑1 (MQ=255)                                               tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCa                                       >  1:5552838/1‑44 (MQ=255)                                               tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCa                                       >  1:480781/1‑44 (MQ=255)                                               tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg            <  1:4601654/71‑1 (MQ=255)                                               tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg            <  1:157456/71‑1 (MQ=255)                                               tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg            <  1:4781529/71‑1 (MQ=255)                                               tAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTtgtg            <  1:2803890/71‑1 (MQ=255)                                                 aTCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGa           <  1:28518/70‑1 (MQ=255)                                                 aTCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                    >  1:1602933/1‑45 (MQ=255)                                                 aTCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                    >  1:3751927/1‑45 (MQ=255)                                                 aTCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTg                                    >  1:180262/1‑45 (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    <  1:2953582/71‑1 (MQ=255)                                                       cTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCag    <  1:2961360/71‑1 (MQ=255)                                                       cTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCag    <  1:4744225/71‑1 (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)                                                                  |                                                              ACACCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAG  >  minE/313817‑313943

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: ‑