Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	313,471	C→G	7.4%	V206V (GTG→GTC)	acrA ←	multidrug efflux system

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	313,471	0	C	G	7.4%	236.7 / 6.6	80	V206V (GTG→GTC)	acrA	multidrug efflux system
Reads supporting (aligned to +/- strand):  ref base C (34/40);  new base G (4/2);  total (38/42)
Fisher's exact test for biased strand distribution p-value = 4.16e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGC  >  minE/313402‑313541                                                                      |                                                                       ttCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCa                                                                       >  1:2278772/1‑71 (MQ=255)   ccTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCAc                                                                      <  1:450876/70‑1 (MQ=255)    cTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACgg                                                                    <  1:2646348/71‑1 (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)          cAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTATATCGGATCAAGTTGCTGCACgg                                                                    <  1:1447814/65‑1 (MQ=255)           aGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAg                                                             <  1:3770735/71‑1 (MQ=255)           aGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAg                                                             <  1:3427590/71‑1 (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)                       tCGTTGCTGGATTGGGTCACATCAACGTAGATAGGATCGAGCTGCTGGACAGTCGcc                                                               >  1:1482115/1‑57 (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                                           <  1:807792/71‑1 (MQ=255)                             cTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGtt                                           <  1:3369820/71‑1 (MQ=255)                             cTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGt                                            <  1:1206319/70‑1 (MQ=255)                                gACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGACAGCGCAGTCGCCTGACCGTTCTg                                        >  1:3455754/1‑71 (MQ=255)                                 aCTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGt                                       <  1:2950033/71‑1 (MQ=255)                                   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                                                        >  1:2490898/1‑43 (MQ=255)                                            tCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAg                                                        >  1:167886/1‑43 (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               <  1:2300564/71‑1 (MQ=255)                                                         gATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTc               <  1:2190978/71‑1 (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             >  1:629776/1‑71 (MQ=255)                                                           tCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGa             >  1:2853483/1‑71 (MQ=255)                                                            cAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATgcgc                             <  1:1322249/54‑1 (MQ=255)                                                             aaGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGAc            <  1:1353681/70‑1 (MQ=255)                                                              aGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGcc                            >  1:3416875/1‑53 (MQ=255)                                                              aGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACtt          <  1:158687/71‑1 (MQ=255)                                                              aGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACtt          <  1:2862113/71‑1 (MQ=255)                                                              aGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACt           >  1:2719315/1‑70 (MQ=255)                                                                  gctgcACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTAcc       >  1:678621/1‑70 (MQ=255)                                                                   ctgcACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCa      <  1:289564/70‑1 (MQ=255)                                                                     gcACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACt           <  1:1958062/63‑1 (MQ=255)                                                                      cACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGtt                >  1:1468650/1‑57 (MQ=255)                                                                      cACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGc  <  1:690335/71‑1 (MQ=255)                                                                      |                                                                       TTCCTGTTTCAGGCGCAGGAAGTCGTTGCTGGACTGGGTCACATCAACGTAGATCGGATCAAGTTGCTGCACGGTTGCCAGCGCAGTCGCCTGACCGTTCTGTACCAATGCGCCTTCCGTCACGTTCGACTTACCAATGC  >  minE/313402‑313541

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: ‑