Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 312,710 T→G 12.5% K55Q (AAA→CAA) ‡ acrB ← multidrug efflux system protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE312,7100TG12.5% 170.8 / 23.7 80K55Q (AAA→CAA) ‡acrBmultidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base T (23/47);  new base G (7/3);  total (30/50)
Fisher's exact test for biased strand distribution p-value = 3.53e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.49e-01

TGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTGCGCCAC  >  minE/312641‑312779
                                                                     |                                                                     
tGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTc                                                                      <  1:1535085/71‑1 (MQ=255)
  tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTc                                                                      >  1:612396/1‑69 (MQ=255)
  tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTc                                                                      >  1:1247704/1‑69 (MQ=255)
  tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCg                                                                     >  1:352436/1‑70 (MQ=255)
  tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGc                                                                    <  1:1873206/71‑1 (MQ=255)
   aCATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCa                                                                   >  1:2709462/1‑71 (MQ=255)
    cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCTCAt                                                                  <  1:1813843/71‑1 (MQ=255)
    cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                                  <  1:3274708/71‑1 (MQ=255)
    cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                                  <  1:1594504/71‑1 (MQ=255)
    cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                                  <  1:265665/71‑1 (MQ=255)
    cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                                  <  1:3837007/71‑1 (MQ=255)
    cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                                  <  1:514134/71‑1 (MQ=255)
     aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                                  >  1:964414/1‑70 (MQ=255)
     aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 <  1:272665/71‑1 (MQ=255)
     aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 <  1:3355219/71‑1 (MQ=255)
     aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 <  1:1739761/71‑1 (MQ=255)
     aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCAt                                                                  >  1:1037871/1‑70 (MQ=37)
      tCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCa                                                                <  1:53633/71‑1 (MQ=255)
        aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGc                                                                    >  1:2659004/1‑65 (MQ=255)
        aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGTATCAg                                                               <  1:480624/70‑1 (MQ=255)
        aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAg                                                               <  1:405278/70‑1 (MQ=255)
        aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAgc                                                              >  1:3362124/1‑71 (MQ=37)
           ttATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 >  1:2431728/1‑65 (MQ=255)
            tATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 >  1:1697515/1‑64 (MQ=255)
            tATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGccc                                                          >  1:714867/1‑70 (MQ=255)
             aTCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTc                                                                      <  1:1077446/58‑1 (MQ=255)
               cGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg                                                       >  1:1807409/1‑71 (MQ=255)
               cGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg                                                       >  1:2923637/1‑71 (MQ=255)
                gATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCcgga                                                       <  1:3615062/70‑2 (MQ=255)
                 aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCg                                                          <  1:2667872/66‑1 (MQ=255)
                 aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCg                                                          <  1:24974/66‑1 (MQ=255)
                 aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTa                                                     <  1:858137/71‑1 (MQ=255)
                    ccGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTagga                                                  <  1:1470941/71‑1 (MQ=255)
                    ccGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCa                                                                >  1:893231/1‑57 (MQ=255)
                    ccGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCa                                                                >  1:683653/1‑57 (MQ=255)
                    ccGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagtt                                                  >  1:3706071/1‑69 (MQ=25)
                     cGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagttt                                                 <  1:173351/71‑4 (MQ=255)
                     cGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagttt                                                 <  1:1412321/71‑4 (MQ=255)
                      gTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 <  1:3919259/54‑1 (MQ=255)
                         cATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 >  1:1537787/1‑51 (MQ=255)
                          atatTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGcc                                                           <  1:1086841/56‑1 (MQ=255)
                            atTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                                 <  1:43547/48‑1 (MQ=255)
                             ttCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGAt                                         <  1:3928209/71‑1 (MQ=255)
                               cTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGtttt                                                                       >  1:575913/1‑39 (MQ=255)
                               cTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGtttt                                                                       >  1:346902/1‑39 (MQ=255)
                               cTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCTGGGTAGGAGGCGGAGATCg                                       >  1:2437973/1‑71 (MQ=255)
                                  ttCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGcc                                                           <  1:1310219/48‑1 (MQ=255)
                                  ttCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGcc                                                           <  1:1009101/48‑1 (MQ=255)
                                  ttCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCg                                       <  1:2771027/68‑1 (MQ=255)
                                  ttCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGt                                      <  1:315028/69‑1 (MQ=255)
                                   tCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTAc                                   >  1:3030298/1‑71 (MQ=255)
                                    cGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGTGCCGGGGTAGGAGGCGGAGATCGTTAc                                   >  1:1280558/1‑70 (MQ=255)
                                    cGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACt                                  >  1:348681/1‑71 (MQ=255)
                                      aTAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTagga                                                  <  1:3662500/53‑1 (MQ=255)
                                      aTAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGc                                <  1:3503577/71‑1 (MQ=255)
                                        aaCCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCcggat                                                      >  1:1763248/1‑45 (MQ=16)
                                           cTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcggcg                           >  1:3112881/1‑71 (MQ=255)
                                              tgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcggcgg                          <  1:56683/69‑1 (MQ=255)
                                              tgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGt                         <  1:163203/70‑1 (MQ=255)
                                              tgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGt                         <  1:575948/70‑1 (MQ=255)
                                               gtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGt                                      <  1:1452694/56‑1 (MQ=255)
                                                  aCCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg                                                       >  1:1440289/1‑36 (MQ=255)
                                                    cGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCg                  <  1:3818560/71‑1 (MQ=255)
                                                    cGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCg                  <  1:386248/71‑1 (MQ=255)
                                                     gtgtCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGt                 <  1:3424427/71‑1 (MQ=255)
                                                     gtgtCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGt                 <  1:3062016/71‑1 (MQ=255)
                                                          cTGCACTGTTTTCGCATCAGCGCCGGGGTAGTAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGat            <  1:2128348/71‑1 (MQ=255)
                                                            gCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGgaga                                          >  1:872266/1‑39 (MQ=255)
                                                            gCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGtt                                     >  1:2321990/1‑44 (MQ=255)
                                                            gCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcgg                             <  1:1920837/52‑1 (MQ=255)
                                                            gCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcgg                             <  1:1913564/52‑1 (MQ=255)
                                                             cACTGTTTTCGCATCAGCGCCGGGGTAGGATGCGGAGATCGTTACTGCCGGCGGTGCATTCGTAGGATAtt         <  1:1753862/71‑1 (MQ=255)
                                                             cACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCGGGCGGTGCAATCGTAGGatat          <  1:129791/70‑1 (MQ=255)
                                                             cACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGatat          <  1:720345/70‑1 (MQ=255)
                                                             cACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATAtt         <  1:221956/71‑1 (MQ=255)
                                                              aCTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcggcg                           >  1:1228041/1‑52 (MQ=255)
                                                              aCTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTg        <  1:2905290/71‑1 (MQ=255)
                                                              aCTGTTTTCGAATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTg        <  1:793099/71‑1 (MQ=255)
                                                                tGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGAt                                         >  1:2879259/1‑36 (MQ=255)
                                                                tGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGt                                      <  1:1727680/39‑1 (MQ=255)
                                                                tGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTgcg      >  1:959724/1‑71 (MQ=255)
                                                                tGTTTTCGCATCAGCGCCGGGGTAGGAGGAGGAGATCGtt                                     >  1:541529/1‑40 (MQ=255)
                                                                    ttCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGt                                      <  1:1653572/35‑1 (MQ=255)
                                                                    ttCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTgc       >  1:1048526/1‑66 (MQ=255)
                                                                    ttCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTGCGCCa   <  1:3711344/70‑1 (MQ=255)
                                                                    ttCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTGCGCCAc  >  1:2131188/1‑71 (MQ=255)
                                                                     |                                                                     
TGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTGCGCCAC  >  minE/312641‑312779

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: