Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	313,462	A→G	8.1%	L209L (CTT→CTC)	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	313,462	0	A	G	8.1%	240.3 / 10.0	86	L209L (CTT→CTC)	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand):  ref base A (38/41);  new base G (5/2);  total (43/43)
Fisher's exact test for biased strand distribution p-value = 4.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01

TTCGCCAGTTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGAC  >  minE/313394‑313531                                                                     |                                                                      ttCGCCAGTTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAg                                                                     >  1:1179310/1‑71 (MQ=255) ttCGCCAGTTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAg                                                                     >  1:3535527/1‑71 (MQ=255)   cGCCAGTTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGt                                                                    <  1:2771688/70‑1 (MQ=255)    gCCAGTTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTTGGTCACATCAACGTAGATCGGATCAAGTtg                                                                  <  1:381997/71‑1 (MQ=255)        gTTCCTGTTTCAGGAGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGt                                                                    <  1:2785126/65‑1 (MQ=255)         ttCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCa                                                             >  1:2278772/1‑71 (MQ=255)           ccTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCAc                                                            <  1:450876/70‑1 (MQ=255)            cTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACgg                                                          <  1:2646348/71‑1 (MQ=255)             tGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTtg                                                                  >  1:3620079/1‑62 (MQ=255)             tGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTtg                                                                  >  1:2638386/1‑62 (MQ=255)              gTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGtt                                                        >  1:2545727/1‑71 (MQ=255)              gTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGtt                                                        >  1:1695547/1‑71 (MQ=255)               tttCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTg                                                       >  1:3390775/1‑71 (MQ=255)                ttCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGc                                                      >  1:975161/1‑71 (MQ=255)                 tCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTtgctg                                                               >  1:2865771/1‑61 (MQ=255)                  cAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTATATCGGATCAAGTTGCTGCACgg                                                          <  1:1447814/65‑1 (MQ=255)                   aGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAg                                                   <  1:3427590/71‑1 (MQ=255)                   aGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAg                                                   <  1:3770735/71‑1 (MQ=255)                   aGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAg                                                   >  1:423130/1‑71 (MQ=255)                       gcAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCa                                               <  1:953390/71‑1 (MQ=255)                       gcAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCa                                               <  1:889669/71‑1 (MQ=255)                        cAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCa                                               <  1:2702468/70‑1 (MQ=255)                        cAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAg                                              <  1:358370/71‑1 (MQ=255)                         aGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGt                                                         <  1:2928788/59‑1 (MQ=255)                         aGGAAGTCGTTGCTGGACT‑GGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGt                                                         <  1:610422/58‑1 (MQ=255)                          ggAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTc                                            <  1:1496254/71‑1 (MQ=255)                            aaGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGc                                          <  1:3402261/71‑1 (MQ=255)                             aGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTtg                                                                  >  1:3157123/1‑46 (MQ=255)                               tCGTTGCTGGATTGGGTCACATCAACGTAGATAGGATCGAGCTGCTGGACAGTCGcc                                                     >  1:1482115/1‑57 (MQ=255)                               tCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTtg                                                                  <  1:3384712/44‑1 (MQ=255)                                 gTTGCTGGATTGGGTCACATCAACGTAGATAGGATCGAGCTGCTGGACAGTCGCCAgttc                                                >  1:3406562/1‑57 (MQ=255)                                 gTTGCTGGACTGGGTCATATCAACGTAGATCGGATCAAGTTGCTGCACgg                                                          <  1:1763547/50‑1 (MQ=255)                                 gTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACgg                                                          <  1:3638478/50‑1 (MQ=255)                                 gTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTg                                       >  1:411650/1‑69 (MQ=255)                                 gTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGAc                                     >  1:788561/1‑71 (MQ=255)                                  ttGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGtt                                                        >  1:2392360/1‑51 (MQ=255)                                   tGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCa                                                             >  1:469065/1‑45 (MQ=255)                                   tGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGtt                                                        >  1:3839957/1‑50 (MQ=255)                                    gCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCa                                                             <  1:1756784/44‑1 (MQ=255)                                    gCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGt                                  >  1:945334/1‑71 (MQ=255)                                     cTGGATTGGGTCACATCAACGTAGATAGGATCGAGCTGCTGGACAGTCGCCAg                                                   <  1:1871319/53‑1 (MQ=255)                                     cTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGtt                                 <  1:3369820/71‑1 (MQ=255)                                     cTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGtt                                 <  1:807792/71‑1 (MQ=255)                                     cTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGt                                  <  1:1206319/70‑1 (MQ=255)                                        gACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGACAGCGCAGTCGCCTGACCGTTCTg                              >  1:3455754/1‑71 (MQ=255)                                         aCTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGt                             <  1:2950033/71‑1 (MQ=255)                                          ttGGGTCACATCAACGTAGATAGGATCGAgctgct                                                                >  1:1358657/2‑35 (MQ=25)                                           tGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTAc                           >  1:3263038/1‑71 (MQ=255)                                              gTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGcc                                                     <  1:719810/42‑1 (MQ=255)                                                cacaTCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATg                      >  1:3279337/1‑71 (MQ=255)                                                 acaTCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATg                      <  1:1604765/70‑1 (MQ=255)                                                 acaTCAACGTAGATAGGATCGAGCTGCTGGACAGTCGCCAg                                                   >  1:631459/1‑41 (MQ=255)                                                 acaTCAACGTAGATAGGATCGAGCTGCTGGACAGTCGCCAGTTCAGTCgtt                                         >  1:3892613/1‑49 (MQ=255)                                                  caTCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATgcg                    >  1:541414/1‑71 (MQ=255)                                                  caTCAACGTAGATAGGATCGAGCTGCTGGACAGTCGCCAg                                                   <  1:2054337/40‑1 (MQ=255)                                                   aTCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATgcgc                   >  1:3456739/1‑71 (MQ=255)                                                    tCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAg                                              >  1:167886/1‑43 (MQ=255)                                                    tCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAg                                              >  1:2490898/1‑43 (MQ=255)                                                    tCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTc                                            >  1:1134639/1‑45 (MQ=255)                                                    tCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGcc                  >  1:1457137/1‑71 (MQ=255)                                                     cAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATgc                     >  1:2738066/1‑67 (MQ=255)                                                      aaCGTAGATCGGATCAAGTTGCTGCACGGTTGCCa                                                    >  1:2041993/1‑35 (MQ=255)                                                      aaCGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTc                                            <  1:2363394/43‑1 (MQ=255)                                                      aaCGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTAc                           >  1:3898596/1‑60 (MQ=255)                                                          tAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCg             <  1:3299116/70‑1 (MQ=255)                                                          tAGATCGGAT‑AAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGa                                      >  1:3555581/1‑44 (MQ=38)                                                           aGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGt            >  1:1079620/1‑70 (MQ=255)                                                           aGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGt            >  1:1906485/1‑70 (MQ=255)                                                             aTCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCAc         >  1:2066607/1‑71 (MQ=255)                                                              tCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCa                         <  1:2773043/54‑1 (MQ=255)                                                              tCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACg        <  1:2235131/71‑1 (MQ=255)                                                                gtaTCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGt       <  1:2286188/68‑1 (MQ=255)                                                                ggATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCa                         >  1:3383651/1‑52 (MQ=255)                                                                ggATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGt       <  1:1272330/70‑1 (MQ=255)                                                                 gATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCa                         <  1:1804115/51‑1 (MQ=255)                                                                 gATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTc     <  1:2933415/71‑1 (MQ=255)                                                                 gATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTc     <  1:2190978/71‑1 (MQ=255)                                                                 gATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTc     <  1:2300564/71‑1 (MQ=255)                                                                 gATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTc     <  1:1210534/71‑1 (MQ=255)                                                                  aTCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCa                         <  1:970748/50‑1 (MQ=255)                                                                  aTCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCg             <  1:2588989/62‑1 (MQ=255)                                                                  aTCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTc     >  1:581912/1‑70 (MQ=255)                                                                   tCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATgc                     <  1:1182810/53‑1 (MQ=255)                                                                   tCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGa   >  1:2853483/1‑71 (MQ=255)                                                                   tCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGa   >  1:629776/1‑71 (MQ=255)                                                                    cAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATgcgc                   <  1:1322249/54‑1 (MQ=255)                                                                     aaGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGAc  <  1:1353681/70‑1 (MQ=255)                                                                     |                                                                      TTCGCCAGTTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGAC  >  minE/313394‑313531

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: ‑