Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 2,511,629 A→T 5.7% intergenic (‑34/+6) alaX ← / ← alaW tRNA‑Ala/tRNA‑Ala

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092732,511,6290AT 5.7% 1364.5 / 3.4 464intergenic (‑34/+6)alaX/alaWtRNA‑Ala/tRNA‑Ala
Reads supporting (aligned to +/- strand):  ref base A (252/175);  new base T (6/31);  total (258/206)
Fisher's exact test for biased strand distribution p-value = 4.16e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 476 total aligned reads displayed.

CATGCAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGCTCTCCCA  >  CP009273/2511562‑2511694
                                                                   |                                                                 
  tgcAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCaaa                                                                 <  1:23521911/68‑1 (MQ=255)
    cAAGCGCTCTCCCAGCTGAGCTATAGCCCCGCGAGGGGTTTACGTTCGAATTTTCGTGGGTGCaaatt                                                               >  1:21261675/1‑66 (MQ=12)
      aGCGCTCTCCCAGCTGAGCTATAGCCCCGCGATGAGTTTACGTACCAAGTTTGCTGCGTGCAAAAttt                                                             >  1:33246957/1‑68 (MQ=37)
        cgcTCTCCCAGCTGAGCTATAGCCCCACGATGGGTTTACGTACCAAGTTAGCTGCGTCCAAAATTtgg                                                           >  1:14291979/1‑68 (MQ=25)
         gcTCTCCCAGCTGAGCTATAGCCCCACGCTGGGTTTACGTACCAAGTTTGCTGGGTGCAAAATTtggt                                                          >  1:9799518/1‑68 (MQ=255)
         gcTCTCCCAGCTGAGCTATAGCCCCACGATGCTTTTACGTACCAAGTTAGGGGGGGGCAAAATTtggt                                                          >  1:27672601/1‑68 (MQ=25)
         gcTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTAGGTACCAAGTTTGGTGGGTGCTAAATTtggt                                                          >  1:29540321/1‑68 (MQ=37)
         gcTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTtggt                                                          <  1:5956628/68‑1 (MQ=255)
         gcTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTCGCTGGGTGCAAAATTtggt                                                          >  1:8558089/1‑68 (MQ=255)
          ctctCCCAGCTGAGCTATAGCCCCCCGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTtggtg                                                         >  1:19105295/1‑68 (MQ=255)
            ctcCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGa                                                       <  1:34331067/68‑1 (MQ=255)
             tcCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAg                                                      <  1:5310322/68‑1 (MQ=255)
              cccAGCTGAGCTATAGCCCCGCGATGCGTTTACGTACCAAGTTTGCTGGGTGCTAATTTTGGTGGa                                                       >  1:2278337/1‑66 (MQ=38)
              cccAGCTGAGCTATAGCCCCCCCAAGCGTTTACTTACCAAGTTTGCGGGGTGCAAAATTTGGTGGAGc                                                     >  1:13413225/1‑68 (MQ=37)
              cccAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGa                                                       >  1:27938274/1‑66 (MQ=255)
               ccAGCTGAGCTATAGCCCCGCGAGGCGTTTACGTACCAAGTTTGGTGGGTGAAAAATTTCGTGGAGCt                                                    >  1:17256241/1‑68 (MQ=37)
                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaatc                                                >  1:13773497/1‑66 (MQ=255)
                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAga                                                >  1:28500678/1‑67 (MQ=255)
                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGc                                                >  1:34102827/1‑68 (MQ=255)
                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGc                                                >  1:3559485/1‑68 (MQ=255)
                   cTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCAAAGc                                                >  1:33049358/1‑68 (MQ=255)
                   cTGAGCTATAGCCCCACGATGCGATTAAGTACCAAGTTAGCTGGGGGCAAAATTTGGTGCAGCaaacc                                                >  1:11264721/1‑66 (MQ=255)
                    tGAGCTATATCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                  <  1:15829613/65‑1 (MQ=255)
                    tGAGCTATAGCCCCACGATGCTTATACGTACCAAGCTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                  <  1:4691481/65‑1 (MQ=255)
                    tGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                  <  1:9316808/65‑1 (MQ=255)
                    tGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTaa                                                  <  1:3712076/65‑1 (MQ=255)
                    tGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAg                                                 <  1:19392822/66‑1 (MQ=255)
                    tGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCGGGGTGCAAAATTTGGTGGAGCTaa                                                  <  1:18429959/65‑1 (MQ=255)
                    tGAGCTATAGCCCCACGAAGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGc                                                <  1:7049507/67‑1 (MQ=255)
                       gCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGa                                            >  1:4457800/1‑68 (MQ=255)
                       gCTATAGCCCCACGATGCGTTTACGTACCAAGCTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCggg                                             <  1:7945107/67‑1 (MQ=255)
                       gCTATAGCCCCACGATCCGTTTACGTACCAAGTTTGGAGGGTGCAAAATTTGGTGGAGCTAAGCggg                                             <  1:24844326/67‑1 (MQ=38)
                       gCTATAGCCCCACGAAGCCTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCggg                                             <  1:12194457/67‑1 (MQ=255)
                       gCTATACCCCCACCCTGCGATTACGCACCAAGGTTGCTGGGTTCTAAATTTGGTGGAGCTAAGCggg                                             <  1:11003866/67‑1 (MQ=21)
                         tataGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATc                                          >  1:7489321/1‑68 (MQ=255)
                         tataGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATc                                          >  1:29918463/1‑68 (MQ=255)
                         tataCCCCCACGAAGAGTTTACGTCCCAAGATTGCTGGGTGCTAAATTTGGTGGAGCTAAGCggg                                             <  1:26683658/65‑1 (MQ=25)
                           aaGCCCCACGATTCGATTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGa                                        <  1:24362472/67‑1 (MQ=37)
                            aGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGa                                        >  1:1559731/1‑67 (MQ=255)
                             gCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGaa                                       >  1:27183847/1‑67 (MQ=255)
                              ctccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:23020543/3‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:9638885/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:26464158/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:29334816/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:10049471/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:32224875/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:32788020/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:14477656/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:1626576/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:6514465/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:2001788/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCCAAcc                                     >  1:9211699/1‑68 (MQ=255)
                              ccccACGATGCGTTTACGTACCAAGATTGCTGGGTGCAAAATTTGCTCGAGCTAAGCGGAATCGAAcc                                     >  1:20895029/1‑68 (MQ=38)
                               cccACGATGCGTTTATGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:25235760/1‑67 (MQ=255)
                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:10500404/1‑67 (MQ=255)
                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:14770214/1‑67 (MQ=255)
                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:20681115/1‑67 (MQ=255)
                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:12842728/1‑67 (MQ=255)
                               cccACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAc                                      <  1:17040636/66‑1 (MQ=255)
                               cccACGATGCGTTAACGTACCAAGCTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGAGCGAAcc                                     <  1:30390728/67‑1 (MQ=37)
                                 cACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:22250961/1‑65 (MQ=255)
                                 cACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAAcc                                     >  1:31537136/1‑65 (MQ=255)
                                  aCGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTg                                 >  1:17997341/1‑68 (MQ=255)
                                   ctaTGCGTTTACGTACCAAGCTTGCAGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                <  1:1459011/66‑1 (MQ=25)
                                   cGATTCGTTTACGTACCAAGTTTGCTGGGTGCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                <  1:25109171/68‑1 (MQ=255)
                                   cGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                <  1:30766896/68‑1 (MQ=255)
                                   cGATGCGTTTACGGACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                <  1:9907335/68‑1 (MQ=255)
                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                >  1:1519337/1‑67 (MQ=255)
                                    gATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGa                                >  1:31889898/1‑67 (MQ=255)
                                     aTGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGAcc                              <  1:18261087/68‑1 (MQ=255)
                                     aTGCGTTTACGTACCAAGTTTGCAGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGAcc                              <  1:28171925/68‑1 (MQ=255)
                                      tGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGAcc                              <  1:31111036/67‑1 (MQ=255)
                                      tGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGAcc                              <  1:33478198/67‑1 (MQ=255)
                                      tGCGTATACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGAcc                              <  1:28926462/67‑1 (MQ=255)
                                        cgattACGGACCAAGTTTGCTGGGTTGAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                           <  1:19573815/65‑1 (MQ=17)
                                         gTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGAGCGAACCGCTGACctct                           <  1:27575180/67‑1 (MQ=255)
                                         gTTTACGCACCAAGGTGGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACctct                           <  1:6591026/67‑1 (MQ=18)
                                          tttACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCtt                          >  1:20258684/1‑67 (MQ=255)
                                              cGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcat                      >  1:20376711/1‑67 (MQ=255)
                                                tcccAAGCATGCTGGGTGCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcc                   <  1:4028118/66‑1 (MQ=14)
                                                tACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcc                   >  1:31670244/1‑68 (MQ=255)
                                                tACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcc                   >  1:23750593/1‑68 (MQ=255)
                                                 tccAAGAATGCAGGGTGCAAAATTTGGGGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcc                   <  1:31284164/66‑1 (MQ=14)
                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                  >  1:11491169/1‑68 (MQ=255)
                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                  >  1:7236709/1‑68 (MQ=255)
                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcca                  >  1:13620816/1‑68 (MQ=255)
                                                 aCCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgcc                   <  1:21674739/67‑1 (MQ=255)
                                                   cAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgccatg                <  1:5713123/68‑1 (MQ=255)
                                                   cAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgccat                 >  1:8915460/1‑67 (MQ=255)
                                                   cAAGTCTGCAGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgccatg                <  1:33843841/68‑1 (MQ=255)
                                                   cAAGATTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGcatgccatg                <  1:8352292/68‑1 (MQ=255)
                                                         tGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcg          <  1:23244844/68‑1 (MQ=255)
                                                          gCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgc           >  1:21173840/1‑66 (MQ=255)
                                                            tGGGTTCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGctc       <  1:28745199/68‑1 (MQ=255)
                                                            tGGGTTCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGctc       <  1:11836163/68‑1 (MQ=255)
                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc         >  1:1160676/1‑66 (MQ=255)
                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc         >  1:676420/1‑66 (MQ=255)
                                                            tGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAgcgc         >  1:16888568/1‑66 (MQ=255)
                                                             gggTGCTAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGctct      <  1:25901362/68‑1 (MQ=255)
                                                             gggTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGctct      <  1:25499155/68‑1 (MQ=255)
                                                                   |                                                                 
CATGCAAGCGCTCTCCCAGCTGAGCTATAGCCCCACGATGCGTTTACGTACCAAGTTTGCTGGGTGCAAAATTTGGTGGAGCTAAGCGGGATCGAACCGCTGACCTCTTGCATGCCATGCAAGCGCTCTCCCA  >  CP009273/2511562‑2511694

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑