Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 312,708 T→C 12.5% K55K (AAA→AAG) ‡ acrB ← multidrug efflux system protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE312,7080TC12.5% 206.7 / 18.6 80K55K (AAA→AAG) ‡acrBmultidrug efflux system protein
Reads supporting (aligned to +/- strand):  ref base T (23/47);  new base C (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 = 9.44e-01

CATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTGCG  >  minE/312639‑312775
                                                                     |                                                                   
cATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt                                                                    <  1:1026371/71‑1 (MQ=255)
cATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt                                                                    <  1:248404/71‑1 (MQ=255)
cATGTACATCAGCTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt                                                                    <  1:1211857/71‑1 (MQ=255)
  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                                                              <  1:514134/71‑1 (MQ=255)
      cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                              <  1:3837007/71‑1 (MQ=255)
      cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                              <  1:3274708/71‑1 (MQ=255)
      cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                              <  1:265665/71‑1 (MQ=255)
      cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                              <  1:1594504/71‑1 (MQ=255)
       aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt                                                              >  1:964414/1‑70 (MQ=255)
       aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                             <  1:3355219/71‑1 (MQ=255)
       aTCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATc                                                             <  1:272665/71‑1 (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                                             <  1:1412321/71‑4 (MQ=255)
                       cGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagttt                                             <  1:173351/71‑4 (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                                                       <  1:1009101/48‑1 (MQ=255)
                                    ttCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGcc                                                       <  1:1310219/48‑1 (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)
                                                                     |                                                                   
CATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGTAGGATATTGCG  >  minE/312639‑312775

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: