Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	Exported	313,879	A→T	19.4%	P70P (CCT→CCA)	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	Exported	313,879	0	A	T	19.4%	222.4 / 45.8	98	P70P (CCT→CCA)	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand):  ref base A (40/39);  new base T (13/6);  total (53/45)
Fisher's exact test for biased strand distribution p-value = 2.04e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

GAGAGAGACACCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAG  >  Exported/313810‑313943                                                                      |                                                                 gagagagaCACCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAg                                                                 <  1:3355624/71‑1 (MQ=255)  agagagaCACCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAgg                                                                <  1:2898845/71‑1 (MQ=255)        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                                                     >  1:1906437/1‑69 (MQ=255)               cTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTg                                                     >  1:3209556/1‑69 (MQ=255)               cTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTg                                                     >  1:4422835/1‑69 (MQ=255)                  cGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATc                                                >  1:4141687/1‑71 (MQ=255)                    acatCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACt                                                         <  1:4917131/57‑1 (MQ=255)                    acatCGCTGCCTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACt                                                         <  1:5261606/57‑1 (MQ=255)                    aTGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAg                                                                 <  1:3123355/52‑1 (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                                            <  1:5230191/65‑1 (MQ=255)                            aCCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGt                                            <  1:1228423/65‑1 (MQ=255)                             ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAAc                                                          <  1:5564794/50‑1 (MQ=255)                             ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAAc                                                          <  1:2626268/50‑1 (MQ=255)                             ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACt                                     >  1:1876190/1‑71 (MQ=255)                             ccTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACt                                     >  1:1869642/1‑71 (MQ=255)                             ccTTCAGTGAAATTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCatt                                     <  1:2516331/71‑3 (MQ=255)                                tcttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACt                                                         >  1:1237771/1‑48 (MQ=255)                                 cttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACtt                                                        >  1:3856700/1‑48 (MQ=255)                                 cttTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACtt                                                        >  1:4605907/1‑48 (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                                 >  1:536100/1‑66 (MQ=255)                                      aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTg                                 >  1:3001702/1‑66 (MQ=255)                                      aaaTTGCGATTCAGTACGATCCCGCTAACCTGTGGGCGAACTTCGGCTATACGATAAGCATTGGTg                                 >  1:1572776/1‑66 (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                                              >  1:1544449/1‑48 (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                                    >  1:180262/1‑45 (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    <  1:2953582/71‑1 (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)                                                                      |                                                                 GAGAGAGACACCTGCTTCGATGTCGCTACCTTCTTTGAAATTACGCTTCAGGATAATCCCGCTAACTTGAGGACGAACTTCTGCGATCCGGTAGGCACTGGTGCGACCCGGAAGCTCGGTTGTGATCTGCAGAG  >  Exported/313810‑313943

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: ‑