Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 4,264,307 T→C 6.7% R85R (CGT→CGC)  ssb → single‑stranded DNA‑binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092734,264,3070TC 6.7% 2354.2 / 95.1 681R85R (CGT→CGC) ssbsingle‑stranded DNA‑binding protein
Reads supporting (aligned to +/- strand):  ref base T (216/419);  new base C (6/40);  total (222/459)
Fisher's exact test for biased strand distribution p-value = 2.97e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01

Only 100 of 684 total aligned reads displayed.

AACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGGC  >  CP009273/4264240‑4264373
                                                                   |                                                                  
  cTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTa                                                                   >  1:25306564/1‑67 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTTCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:27908424/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:31145427/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:19997733/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:21245384/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:22091793/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:27164656/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:15896598/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:31461209/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:31791451/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:32456590/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:33549689/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:34577868/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:5693985/68‑1 (MQ=255)
   tGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTAcc                                                                 <  1:7211208/68‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGt                                                              <  1:12697970/66‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGt                                                              <  1:15367549/66‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGt                                                              <  1:33414822/66‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGt                                                              <  1:16700189/66‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGTa                                                             <  1:30911886/67‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGTa                                                             <  1:29011038/67‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGTa                                                             <  1:25680379/67‑1 (MQ=255)
       ggAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGTa                                                             <  1:11297001/67‑1 (MQ=255)
        gAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGTa                                                             >  1:10573731/1‑67 (MQ=255)
        gAAGTGGCAGGTGAATGTCTGCGCAAGGGCGCGCAGGTCTACATCGAAGGTCAGCTTCGCACCCGTa                                                             >  1:35917869/1‑67 (MQ=255)
          aGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTa                                                             <  1:4469562/65‑1 (MQ=255)
          aGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTa                                                             <  1:365093/65‑1 (MQ=255)
          aGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTa                                                             <  1:34901002/65‑1 (MQ=255)
          aGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAAt                                                          <  1:6571567/68‑1 (MQ=255)
           gTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATg                                                         >  1:2848892/1‑68 (MQ=255)
           gTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGGTTATATCGAAGGTCAGCTGCGTACCCGTAAATg                                                         >  1:11505298/1‑68 (MQ=255)
             ggCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATgg                                                        <  1:367890/67‑1 (MQ=255)
               cgagcgaATATTTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGAcc                                                     >  1:24946317/1‑68 (MQ=255)
               cgagcgaATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGAcc                                                     >  1:26455051/1‑68 (MQ=255)
                gagcgaATATCTGCGTAAATGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCg                                                    <  1:24728066/68‑1 (MQ=255)
                gagcgaATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCg                                                    <  1:11746224/68‑1 (MQ=255)
                gagcgaATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCg                                                    <  1:33184756/68‑1 (MQ=255)
                  gcgaATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGa                                                   <  1:29531795/67‑1 (MQ=255)
                      atatCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCaa                                               <  1:6474537/67‑1 (MQ=255)
                      atatCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCaa                                               <  1:16523756/67‑1 (MQ=255)
                      atatCTGCGTAAAGGTTCTCACGTTTATATCGAAGGTCATCTGCGTACCCGTAAATGGACCGATCaa                                               <  1:34261908/67‑1 (MQ=255)
                        atCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATcc                                            >  1:23270592/1‑68 (MQ=255)
                         tCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCg                                           >  1:17558753/1‑68 (MQ=255)
                         tCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCg                                           >  1:32130312/1‑68 (MQ=255)
                         tCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCg                                           >  1:14767283/1‑68 (MQ=255)
                          gtGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:9464146/67‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:13841845/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:34015135/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:4673440/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:5397411/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:9048194/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:29293811/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:2167906/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:18153646/68‑1 (MQ=255)
                          cTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCgg                                          <  1:17003644/68‑1 (MQ=255)
                           tGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGt                                         <  1:22360722/68‑1 (MQ=255)
                           tGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGt                                         <  1:1734712/68‑1 (MQ=255)
                              gTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAg                                      <  1:10955004/68‑1 (MQ=255)
                                aaaGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAgg                                     <  1:37033374/67‑1 (MQ=255)
                                aaaGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGa                                    <  1:18770566/68‑1 (MQ=255)
                                aaaGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGCACCGATCAATCCGGTCAGGa                                    <  1:32763589/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:19506561/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:2426964/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:12176676/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:3786138/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:26621897/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:22864274/68‑1 (MQ=255)
                                  aGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  <  1:18958749/68‑1 (MQ=255)
                                   ggTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  >  1:10177138/1‑67 (MQ=255)
                                   ggTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  >  1:12472367/1‑67 (MQ=255)
                                   ggTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATc                                  >  1:35256625/1‑67 (MQ=255)
                                     ttCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCg                                 <  1:29859352/66‑1 (MQ=255)
                                     ttCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCg                                 <  1:7611317/66‑1 (MQ=255)
                                     ttCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCg                                 <  1:4026994/66‑1 (MQ=255)
                                      tctcAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCt                               <  1:19769504/67‑1 (MQ=255)
                                      tctcAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCt                               <  1:27493869/67‑1 (MQ=255)
                                             tttATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTAcaccac                        <  1:14301914/67‑1 (MQ=255)
                                             tttATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTAcacc                          <  1:7458233/65‑1 (MQ=255)
                                             tttATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTAcacc                          <  1:17817726/65‑1 (MQ=255)
                                             tttATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACcaca                       >  1:8316845/1‑68 (MQ=255)
                                              ttATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACcaca                       <  1:35036289/67‑1 (MQ=255)
                                              ttATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACcaca                       <  1:5932114/67‑1 (MQ=255)
                                                atatCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCTCTACACCACAGaa                    <  1:20417135/68‑1 (MQ=255)
                                                  atCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAg                   >  1:16200649/1‑67 (MQ=255)
                                                  atCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAg                   >  1:8706947/1‑67 (MQ=255)
                                                  atCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAg                   >  1:26098745/1‑67 (MQ=255)
                                                  atCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCCACACCACAGAAg                   >  1:23740309/1‑67 (MQ=255)
                                                     gAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCgt               <  1:13408802/68‑1 (MQ=255)
                                                       aGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCgtgg             <  1:7941705/68‑1 (MQ=255)
                                                        ggTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCgtggt            >  1:23962310/1‑68 (MQ=255)
                                                        ggTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCgt               >  1:22533521/1‑65 (MQ=255)
                                                           cAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGa          <  1:31049049/67‑1 (MQ=255)
                                                            aGCTGCGTACCCGTAAATGGACCGATCATTCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAAc        >  1:20836204/1‑68 (MQ=255)
                                                               tGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGtt     >  1:6795762/1‑68 (MQ=255)
                                                               tGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGtt     >  1:18527437/1‑68 (MQ=255)
                                                               tGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGtt     >  1:35434339/1‑68 (MQ=255)
                                                                gCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTg    <  1:30390013/68‑1 (MQ=255)
                                                                gCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTg    <  1:515283/68‑1 (MQ=255)
                                                                gCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTg    <  1:15098650/68‑1 (MQ=255)
                                                                gCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTg    >  1:13134628/1‑68 (MQ=255)
                                                                   |                                                                  
AACTGGCAGAAGTGGCGAGCGAATATCTGCGTAAAGGTTCTCAGGTTTATATCGAAGGTCAGCTGCGTACCCGTAAATGGACCGATCAATCCGGTCAGGATCGCTACACCACAGAAGTCGTGGTGAACGTTGGC  >  CP009273/4264240‑4264373

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: ‑