Predicted mutation
evidence seq id position mutation freq annotation gene description
RA AP009048 1,746,015 C→A 7.7% S282* (TCA→TAA) ‡ mdtK → multidrug efflux system transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*AP0090481,746,0150CA 7.7% 326.8 / 7.0 104S282* (TCA→TAA) ‡mdtKmultidrug efflux system transporter
Reads supporting (aligned to +/- strand):  ref base C (47/48);  new base A (6/2);  total (53/51)
Fisher's exact test for biased strand distribution p-value = 2.71e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.92e-01

Only 100 of 108 total aligned reads displayed.

GTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCA  >  AP009048/1745945‑1746084
                                                                      |                                                                     
gtGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTc                                                                       <  1:7649076/71‑1 (MQ=255)
   gCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACt                                                                    <  1:5171525/71‑1 (MQ=255)
   gCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTAAAGTTCag                                                                     <  1:4259525/70‑2 (MQ=255)
       tGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATg                                                                >  1:2020581/1‑71 (MQ=255)
         ttAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATg                                                                <  1:2590057/69‑1 (MQ=255)
         ttAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATg                                                                <  1:2088173/69‑1 (MQ=255)
           aGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCg                                                            >  1:7040404/1‑71 (MQ=255)
            gtgtCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCg                                                            <  1:2071664/70‑1 (MQ=255)
            gtgtCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGt                                                           <  1:7876384/71‑1 (MQ=255)
             tgtCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTc                                                             <  1:4931693/68‑1 (MQ=255)
                ctcCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCa                                                                      >  1:7660724/1‑56 (MQ=255)
                ctcCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTAAAGTTCagg                                                                    >  1:3153850/1‑56 (MQ=255)
                ctcCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTAAAGTTCagg                                                                    >  1:477960/1‑56 (MQ=255)
                   cGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAAt                                                                 >  1:6353498/1‑58 (MQ=255)
                   cGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAAt                                                                 >  1:252493/1‑58 (MQ=255)
                   cGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTc                                                      <  1:3046366/69‑1 (MQ=255)
                    gCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCaa                                                   <  1:4144455/71‑1 (MQ=255)
                    gCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCATGAACTTTAGTTCACTAATGTTCGTGCTTCCaa                                                   <  1:6962731/71‑1 (MQ=255)
                     cTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCaa                                                   >  1:3281981/1‑70 (MQ=255)
                     cTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAAt                                                  <  1:1175890/71‑1 (MQ=255)
                     cTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAAt                                                  <  1:7813226/71‑1 (MQ=255)
                      tCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATg                                                 >  1:7027320/1‑71 (MQ=255)
                       cGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGt                                                >  1:2829649/1‑71 (MQ=255)
                        ggTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTc                                               <  1:6974278/71‑1 (MQ=255)
                         gTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTc                                               <  1:7342369/70‑1 (MQ=255)
                          tATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGt                                                           >  1:4981553/1‑57 (MQ=255)
                            ttgttgATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCa                                                                      <  1:1459110/44‑1 (MQ=255)
                            ttgttgATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCt                                            <  1:4123700/70‑1 (MQ=255)
                            ttgttgATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTg                                           >  1:3629285/1‑71 (MQ=255)
                              gttgATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGt                                                               >  1:1698320/1‑49 (MQ=255)
                              gttgATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGt                                                               >  1:5613654/1‑49 (MQ=255)
                              gttgATGTCGCAGGACACCAGATTACCCTGAACTTTAGTTCACTAATGt                                                               >  1:2702811/1‑49 (MQ=255)
                                   tGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTggcggc                                      <  1:4581825/69‑1 (MQ=255)
                                   tGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCa                                     >  1:1649979/1‑70 (MQ=255)
                                    gTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGc                                   >  1:7692650/1‑71 (MQ=255)
                                      cGCAGGACACCAGATTGCCCTGAACATTAGTGAACTaaag                                                                <  1:6610041/40‑3 (MQ=18)
                                      cGCAGGACACCAGATTGCCCTGAACATTAGTGAACTaaag                                                                <  1:2163741/40‑3 (MQ=18)
                                       gCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGc                                   >  1:4095656/1‑68 (MQ=255)
                                       gCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGc                                   >  1:1486992/1‑68 (MQ=255)
                                       gCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCgg                                 >  1:7863857/1‑70 (MQ=255)
                                       gCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGt                                <  1:3302284/71‑1 (MQ=255)
                                       gCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGt                                <  1:7017347/71‑1 (MQ=255)
                                        cAGGACACCAGATTGCCCTGAACATTAGTGAACTAAAGtt                                                              >  1:5502172/1‑40 (MQ=17)
                                        cAGGACACCAGATTGCCCTGAACATTAGTGAACTAAAGtt                                                              >  1:1011271/1‑40 (MQ=17)
                                        cAGGACACCAGATTGCCCTGAACATTAGTGAACTAAAGtt                                                              >  1:2306258/1‑40 (MQ=17)
                                        cAGGACACCAGATTGCCCTGAACATTAGTGAACTAAAGt                                                               >  1:5948181/1‑39 (MQ=17)
                                         aGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGt                                                >  1:4475531/1‑53 (MQ=255)
                                           gACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACt                            <  1:3757491/71‑1 (MQ=255)
                                              acCAGATTGCCCTGAACTTTAGTTGACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATc                         <  1:876131/71‑1 (MQ=255)
                                              acCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAg                                    <  1:6862821/60‑1 (MQ=255)
                                              acCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATc                         <  1:124230/71‑1 (MQ=255)
                                              acCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATc                         <  1:7713019/71‑1 (MQ=255)
                                              acCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATc                         <  1:5613051/71‑1 (MQ=255)
                                               ccAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCg                                  <  1:6258067/61‑1 (MQ=255)
                                               ccAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATc                         <  1:4087423/70‑1 (MQ=255)
                                                cAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGc                                                         >  1:7571647/1‑37 (MQ=255)
                                                cAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGc                                                         >  1:7330985/1‑37 (MQ=255)
                                                cAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGc                                                         >  1:6126037/1‑37 (MQ=255)
                                                cAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAg                                    >  1:7494249/1‑58 (MQ=255)
                                                cAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCcg                       >  1:4321650/1‑71 (MQ=255)
                                                  gATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCcgcg                     >  1:4221528/1‑71 (MQ=255)
                                                   aTTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTg                                           <  1:3383458/48‑1 (MQ=255)
                                                   aTTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTg                                           <  1:1645725/48‑1 (MQ=255)
                                                    ttGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCcgcg                     >  1:5800979/1‑69 (MQ=255)
                                                      gCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGAGGCAGCGGTAACTATCCGCGTAg                  <  1:2845032/70‑1 (MQ=255)
                                                        ccTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTggcggc                                      <  1:4183616/48‑1 (MQ=255)
                                                        ccTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTa                   <  1:2349045/67‑1 (MQ=255)
                                                         cTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATg                                                 >  1:3366092/1‑36 (MQ=255)
                                                         cTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTggcggc                                      <  1:4690615/47‑1 (MQ=255)
                                                         cTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGTCGGCAGCGGTAACTATCCGCGTAGGTTa              <  1:3643394/71‑1 (MQ=255)
                                                         cTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGt                                <  1:1813759/53‑1 (MQ=255)
                                                         cTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTa              <  1:5924873/71‑1 (MQ=255)
                                                         cTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTa              <  1:1491624/71‑1 (MQ=255)
                                                          tGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTAt             >  1:3569609/1‑71 (MQ=255)
                                                           gAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCa                                     >  1:4255535/1‑46 (MQ=255)
                                                           gAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            >  1:5148377/1‑71 (MQ=255)
                                                           gAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            >  1:4756688/1‑71 (MQ=255)
                                                           gAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            >  1:2337498/1‑71 (MQ=255)
                                                           gAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            >  1:3092577/1‑71 (MQ=255)
                                                           gAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            >  1:6142352/1‑71 (MQ=255)
                                                            aaCTTTAGTTCACTAATGTTCGTGCTTCCAATGTGGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            <  1:2714952/70‑1 (MQ=255)
                                                            aaCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGc                                             >  1:510348/1‑37 (MQ=255)
                                                            aaCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTa                               >  1:773948/1‑51 (MQ=255)
                                                            aaCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATc            <  1:591674/70‑1 (MQ=255)
                                                            aaCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCg           >  1:4808647/1‑71 (MQ=255)
                                                            aaCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCg           >  1:2331468/1‑71 (MQ=255)
                                                             aCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCg           >  1:6793359/1‑70 (MQ=255)
                                                             aCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGt          <  1:7189405/71‑1 (MQ=255)
                                                             aCTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGt          <  1:3147848/71‑1 (MQ=255)
                                                              cTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACt                            <  1:4811079/52‑1 (MQ=255)
                                                               tttAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTa                           <  1:1281839/52‑1 (MQ=255)
                                                                ttAGTTCACTAAAGTTCGTGCTTCCAATGTCGCTGGCGGCACCGGTAACTa                           >  1:7649051/1‑51 (MQ=255)
                                                                 tAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCt        <  1:1856819/69‑1 (MQ=255)
                                                                  aGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTgg      <  1:3244287/70‑1 (MQ=255)
                                                                   gTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTgg      <  1:7685657/69‑1 (MQ=255)
                                                                   gTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGt    <  1:3046016/71‑1 (MQ=255)
                                                                     tCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGt    >  1:5464048/1‑69 (MQ=255)
                                                                      cACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGc                                   >  1:4202371/1‑37 (MQ=255)
                                                                      cACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCa  <  1:1847188/70‑1 (MQ=255)
                                                                      cACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCa  <  1:6975642/70‑1 (MQ=255)
                                                                      |                                                                     
GTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCA  >  AP009048/1745945‑1746084

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: