Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	313,246	C→A	10.4%	P281P (CCG→CCT)	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	313,246	0	C	A	10.4%	209.8 / 7.0	67	P281P (CCG→CCT)	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand):  ref base C (33/27);  new base A (4/3);  total (37/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.06e-01

CGTTTGGATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTCCAGCGTAC  >  minE/313176‑313316                                                                       |                                                                       cGTTTGGATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTc                                                                        <  1:1249372/71‑1 (MQ=255)   tttGGATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCgg                                                                      >  1:2870226/1‑71 (MQ=255)     tGGATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCggg                                                                     <  1:3586547/70‑1 (MQ=255)      ggATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGa                                                                    <  1:1256628/70‑1 (MQ=255)       gATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGaa                                                                   <  1:1484255/70‑1 (MQ=255)        aTTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCgg                                                                      >  1:782222/1‑66 (MQ=255)        aTTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGa                                                                 <  1:2252637/71‑1 (MQ=255)         ttAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGa                                                                 <  1:3160175/70‑1 (MQ=255)             gCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAgcg                                                            >  1:1054775/1‑71 (MQ=255)               ccTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAg                                                              >  1:2731923/1‑67 (MQ=255)               ccTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGcgcg                                                          >  1:2621553/1‑71 (MQ=255)                cttcttCCAGACGTGCGCGCACGAACATACCCGGAAGCAGAGTGTGATCCGGGTTCGGGAAGATAGcgcg                                                          >  1:2840704/1‑70 (MQ=255)                   cttcCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAg                                                       <  1:3262776/70‑1 (MQ=255)                    ttcCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAggg                                                     >  1:38203/1‑71 (MQ=255)                     tcCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGt                                                    >  1:1407321/1‑71 (MQ=255)                      ccAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGaa                                                                   <  1:1627026/55‑1 (MQ=255)                      ccAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAggg                                                     <  1:1014023/69‑1 (MQ=255)                      ccAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGt                                                    <  1:1319217/70‑1 (MQ=255)                       cAGACGTGCGCGCACGAACATACCCGGCAGCAGTGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTg                                                   <  1:177122/70‑1 (MQ=255)                       cAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTg                                                   <  1:1392199/70‑1 (MQ=255)                        atccGTGCACGCACAAACATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGCACGTAGGGTTAt                                                 >  1:1440171/4‑71 (MQ=255)                           cGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGa                                              >  1:2506084/1‑71 (MQ=255)                           cGTGCACGCACAAACATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGCACGTAGGGTTATGGa                                              <  1:2558874/71‑1 (MQ=255)                            gTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAc                                             <  1:2972675/71‑1 (MQ=255)                            gTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAc                                             >  1:2161671/1‑71 (MQ=255)                            gTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAc                                             >  1:963958/1‑71 (MQ=255)                               cgcgcACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAccc                                           <  1:342478/70‑1 (MQ=255)                               cgcgcACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAccc                                           <  1:347168/70‑1 (MQ=255)                               cgcgcACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCa                                          <  1:968922/71‑1 (MQ=255)                                gcgcACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAg                                         <  1:2866077/71‑1 (MQ=255)                                  gcACAAACATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGCACGTAGGGTTATGGAGCCGGTg                                       >  1:2520459/1‑71 (MQ=255)                                  gcACAAACATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGCACGTAGGGTTATGGAGCCGGTg                                       >  1:2524937/1‑71 (MQ=255)                                  gcACAAACATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGCACGTAGGGTTATGGAGCCGGTg                                       >  1:2547432/1‑71 (MQ=255)                                   cACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTgg                                      <  1:2958123/71‑1 (MQ=255)                                    aCGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGt                                     <  1:1805484/71‑1 (MQ=255)                                      gAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCt                                   >  1:642806/1‑71 (MQ=255)                                      aaaCATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGCACGTAGGGTTATGGag                                             <  1:1671618/60‑2 (MQ=255)                                       aaCATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGa                                                  >  1:378178/1‑55 (MQ=255)                                       aaCATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTg                                  <  1:3167200/71‑1 (MQ=255)                                       aaCATACCCGGCAAAAGCGTATGTTGCGGGTTAGGGAAGACAGcacg                                                          <  1:1086704/47‑1 (MQ=255)                                        aCATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGa                                                                 <  1:1570178/39‑1 (MQ=255)                                        aCATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAc                                             >  1:3023332/1‑59 (MQ=255)                                        aCATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGa                                 >  1:1242164/1‑71 (MQ=255)                                        aCATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGa                                 >  1:602593/1‑71 (MQ=255)                                          aTACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATa                                                               >  1:2628368/1‑39 (MQ=255)                                           tACCCGTCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGt                                                         >  1:3479220/1‑44 (MQ=255)                                            aCCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATa                                                               >  1:1083030/1‑37 (MQ=255)                                                ggCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACgg                          >  1:1445506/1‑70 (MQ=255)                                                ggCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACg                           >  1:3948476/1‑69 (MQ=255)                                                ggCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGt                         <  1:688501/71‑1 (MQ=255)                                                     cagAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGt                    >  1:3223652/1‑71 (MQ=255)                                                     cagAGTGTGATCCGGGTTCGGGAAGATAGAGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGt                    >  1:12574/1‑71 (MQ=255)                                                       gagTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAAc                      >  1:954253/1‑67 (MQ=255)                                                        agTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGt                    >  1:1175292/1‑68 (MQ=255)                                                        agTGTGATCCAGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCag                 <  1:2877761/71‑1 (MQ=255)                                                         gtgtGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATc                               <  1:1593406/56‑1 (MQ=255)                                                           gtgATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCaga                >  1:1108409/1‑69 (MQ=255)                                                            tgATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGa                                              >  1:1712043/1‑38 (MQ=255)                                                            tgATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGAcc                                            <  1:2816754/40‑1 (MQ=255)                                                             gATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAAt            >  1:1660834/1‑71 (MQ=255)                                                              aTCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCa                              <  1:3697904/52‑1 (MQ=255)                                                              aTCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCa                              <  1:3886428/52‑1 (MQ=255)                                                              aTCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAAtt           >  1:2336518/1‑71 (MQ=255)                                                              aTCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAAt            <  1:1027793/70‑1 (MQ=255)                                                                ccGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTc          >  1:968542/1‑70 (MQ=255)                                                                      tCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGAt                                >  1:3796927/1‑42 (MQ=255)                                                                      tCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGAt                                >  1:3545643/1‑42 (MQ=255)                                                                      tCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTCCAGCGTa   >  1:3653820/1‑71 (MQ=255)                                                                       cGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTCCAGCGTa   <  1:394430/70‑1 (MQ=255)                                                                       cGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTCCAGCGTAc  >  1:1996961/1‑71 (MQ=255)                                                                       cGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTCCAGCGTAc  >  1:2428621/1‑71 (MQ=255)                                                                       |                                                                       CGTTTGGATTAAGCCCTTCTTCCAGACGTGCGCGCACGAACATACCCGGCAGCAGAGTGTGATCCGGGTTCGGGAAGATAGCGCGTAGGGTGATAGACCCAGTGGTCTGATCAACGGTAACGTCAGAGAATTCCAGCGTAC  >  minE/313176‑313316

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑