Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 5,369,384 A→C 21.6% intergenic (‑118/+81) dnaJ ← / ← dnaK_1 Chaperone protein DnaJ/Chaperone protein DnaK

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24405,369,3840AC21.6% 96.4 / 2.9 57intergenic (‑118/+81)dnaJ/dnaK_1Chaperone protein DnaJ/Chaperone protein DnaK
Reads supporting (aligned to +/- strand):  ref base A (34/9);  new base C (2/12);  total (36/21)
Fisher's exact test for biased strand distribution p-value = 2.50e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCACTTCTTCGAACTCGGCGTCAACCACGTCATC  >  KT2440/5369255‑5369518
                                                                                                                                 |                                                                                                                                      
aCGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCggg                                                                                                                                  >  7:227963/1‑136 (MQ=255)
 cGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCCCGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAAcgcg                                                                                                                                    >  5:42330/1‑133 (MQ=255)
 cGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAAcgcg                                                                                                                                    >  1:286224/1‑133 (MQ=255)
 cGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAAcgcg                                                                                                                                    >  1:383341/1‑133 (MQ=255)
 cGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCggg                                                                                                                                  <  3:173510/135‑1 (MQ=255)
  gCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCAGCTGCGCCACGCCATCAGCACCCGCCCGCAACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGa                                                                                                                                 <  5:112582/135‑1 (MQ=255)
    ttGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAg                                                                                                                                >  3:155860/1‑134 (MQ=255)
    ttGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAg                                                                                                                                >  5:390460/1‑134 (MQ=255)
    ttGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGc                                                                                                                               >  4:155422/1‑135 (MQ=255)
    ttGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGc                                                                                                                               >  8:330856/1‑135 (MQ=255)
      ggACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCaa                                                                                                                             >  1:18986/1‑135 (MQ=255)
               tCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCACCGCGGGAGCAAGCCCCcgcg                                                                                                                    >  6:276762/1‑135 (MQ=255)
               tCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCagcg                                                                                                                    >  5:78468/1‑135 (MQ=255)
                caattGCACCTTGATGGCCGTGTGGCAACTCCGCCACGCCAGCAGCACCCGCCCGCTACCCATTAAGAGCCACTCACAGATGCTGTAAAAATTCTCGAATACCAGATACGCCAACGCGGGAGCAAGCCCCcgcgc                                                                                                                   <  7:405399/132‑1 (MQ=255)
                cATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCcgcgc                                                                                                                   <  2:263081/135‑1 (MQ=255)
                cATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCcgcgc                                                                                                                   <  6:332897/135‑1 (MQ=255)
                 aTTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCcgcgcg                                                                                                                  >  2:323876/1‑135 (MQ=255)
                   ttGCACCTTGTTGGGCGTGTGGCAGCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCgcggc                                                                                                                <  1:103786/135‑1 (MQ=255)
                    ggctcattgttgGGGGTGTGGCATTTGCGCAACGCCAGCTGCACCGGCCCGTAACCAATTAAGAGCCAATGACTGTTGGTGTAAATTTTCTCGAATGCCAGAAACGCCACCGCGTTAGCAAGCCCCCGCgcgg                                                                                                                 <  6:53338/127‑1 (MQ=255)
                     gCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCCCCCGCCCGCTACCCATTAAGCGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGa                                                                                                              >  1:446915/1‑135 (MQ=255)
                     gCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCCGCGAc                                                                                                             >  7:350309/1‑136 (MQ=255)
                     gCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCAATAAGAGCCACAGACACATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCgcggcca                                                                                                              >  7:188480/1‑133 (MQ=255)
                     gCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCAACCCATTAAGAGCCACTGCCAGATCCTGTAAAAATTCTCGAATTCCAGATACGCCACCGCAGGAGCAAGCCCCcgcgccccg                                                                                                               >  2:326105/1‑130 (MQ=255)
                      cACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTACGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGa                                                                                                              <  6:246221/134‑1 (MQ=255)
                           tgttgGGCGTGTGGCATCTGCGCCCCGCCATCAGCACCCGCCCGCTCCCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGCGCAAGCCCCCGCGCGGCGACATCCt                                                                                                        >  1:186410/1‑135 (MQ=255)
                              tgGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTAcc                                                                                                     >  4:435464/1‑135 (MQ=255)
                                      tgGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGCTGCTGTAAAAATTCTCGAAGTCCAGATACGCCAACGCGGGAGCACGCCCCCGCGCGGCGACCTCCTACCCGCTCAcc                                                                                             >  6:314389/1‑135 (MQ=255)
                                      tgGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTcccc                                                                                             >  2:391003/1‑135 (MQ=255)
                                       ggCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCg                                                                                            >  4:287489/1‑135 (MQ=255)
                                        gCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGCGCAAGCCCCCGCGCGGCGCCATCCTACCAGCTCCCCgg                                                                                           >  2:419582/1‑135 (MQ=255)
                                        gCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCgg                                                                                           >  2:419581/1‑135 (MQ=255)
                                        gCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGAGTCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCAGCGCGGCGACATCCTACCAGCTCACCg                                                                                            >  6:187358/1‑134 (MQ=255)
                                         aaTCTGCGCCACGCAATCAGCACCCGCCCGCTACCCATAACGAGCCACTGACAGATGGTTTAAAAATTCTCGATTTCCAGATCCGCCACCGCGGGAGCAAGCCCCCGCGGGGCGAAATCCTACCAGCTCACCGGc                                                                                          <  5:315551/134‑1 (MQ=255)
                                                  cacgccaTCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCCCCGGCAAACGCCgg                                                                                 >  3:401940/1‑135 (MQ=255)
                                                    cgccaTCAGCACCCGCCCGCTACCCATTAAGAGCCATTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGt                                                                                >  4:32207/1‑134 (MQ=255)
                                                    cgccaTCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGt                                                                                >  3:61728/1‑134 (MQ=255)
                                                       caTCAGCACCCGCCCGCTACCCATTAAGCGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAAc                                                                            >  4:30703/1‑135 (MQ=255)
                                                        agcaccACCCGCCCGCTACCAATTAACACCCACTCACATATGCTGTAAAAATTCTCTAATACCAGATACGCCACCGCGGGAGAAAGCCCCCGCGCGGCGACATCCTACCACCACACCGGCAAACGACGGTGAAcc                                                                           <  4:54572/130‑1 (MQ=255)
                                                            gcccccccccgCTACCCATTAAGAGCCACTGACAGATGCTTTAAAAATTCTCGAATTCCAGATCCGCCACCGCGGGAGCACGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCg                                                                      <  7:224057/133‑1 (MQ=255)
                                                                   cccgcTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATCCCCCACCGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACAt                                                               <  8:367260/136‑1 (MQ=255)
                                                                   cccgcAACCCATTAAGCGCCACTCACCGATGCTTTAAAAATGCTCTAATTCCAGATACCCCACCGCGGGAGAAAGCCCCCGCGCGGCTACATCCTACCCGCTCACCGGAACACGACGGTGAACCGGCCGacaaca                                                                <  6:413713/135‑1 (MQ=255)
                                                                    ccgcaccccATAAAGCCCCACTGACAGAGGCTGAAAAAATGCTCGAATTCCAGATCCGCCACCGCGGGCGCAAGCCCCCGCGCGGCGACACCATACCAGCTCACCGCCAAACGACGGTGAACCGGCCGACAACAt                                                               <  4:57508/129‑1 (MQ=255)
                                                                    ccgcAACCAATAAACACCCACTGACATATGTTTTAAAAATTCTGTAATCCCAGAACCCCCACCGGGGTCCCAACCCCCCGCGGGGCGACATCCTACCAGCCCCCCGCCACACGACGGTGAACCGGCCGACAACAt                                                               <  4:61728/135‑1 (MQ=255)
                                                                      gcTACCCATTAAGAGACACTGACAGATGCTGTAAAAATTCTCGAATTCAAGATACGCCAACGCGTGAGCAAGCCCCCGCGCGGCGACATACTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACAt                                                               >  1:132192/1‑133 (MQ=255)
                                                                          cccATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGa                                                        >  7:337698/1‑136 (MQ=255)
                                                                           ccATTAAGAGCCACTGACCGAGGCTTAAAAAATTCTCTAATTCCAGATCCGCCCCCGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCCCCGGCACACGACGGTGAACCGGCCGACAACATGCAGGGa                                                        <  6:80064/135‑1 (MQ=255)
                                                                                    gCCACTGAAAGATGCTGTAAAAATTCTCGAATTCCAGATCCGCCACCGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCACACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCttg                                              <  7:129645/136‑1 (MQ=255)
                                                                                        cTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCttgttg                                           >  5:80064/1‑135 (MQ=255)
                                                                                        cTGACAGATGCTGTAAAAATTCTCCAATTCCAGAAACCCCAACGCGGGAGCACGCCCCCGCGCGGCGACATCCTACCCGCCCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCttgttg                                           <  4:80951/135‑1 (MQ=255)
                                                                                          gACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCttgttgtt                                         >  4:98439/1‑135 (MQ=255)
                                                                                          gACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCttgttgtt                                         >  6:89448/1‑135 (MQ=255)
                                                                                          gACAGATGCTGAAAAAATTCTCCAATTCCAGATACCCCACCGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCttgttgttg                                        <  7:71267/136‑1 (MQ=255)
                                                                                                  cTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCAc                                >  8:85617/1‑136 (MQ=255)
                                                                                                   tGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCAct                               >  8:88985/1‑136 (MQ=255)
                                                                                                                gAATTCCAGATACGCCAACGCGGGAGCAACCCCCCGCGCGGCGACAAACAACCAGCACACCGGCAAACTACGGTGAACCGGCCGACAACATGCAGGGAATACAGCTTGTTGTTGTCTTTCACTTCTTCGAGCTCg                   >  6:40334/1‑135 (MQ=255)
                                                                                                                      cAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCACTTCTTCGAACTCGGCGTCaa            <  8:337698/136‑1 (MQ=255)
                                                                                                                        gatcccccACCGCGGCAGCACGCCCCCGCGCGGCGACATCAAACCCGCACCCCGCCACACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCACTTCTTCGAACTCGGCGTCAAc           <  2:383657/129‑1 (MQ=255)
                                                                                                                                aaCGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCACTTCTTCGAACTCGGCGTCAACCACGTCAt   >  3:391388/1‑135 (MQ=255)
                                                                                                                                 aCGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCACTTCTTCGAACTCGGCGTCAACCACGTCATc  >  3:134865/1‑135 (MQ=255)
                                                                                                                                 |                                                                                                                                      
ACGCTTGGACATAGGTCATTTGCACCTTGTTGGGCGTGTGGCATCTGCGCCACGCCATCAGCACCCGCCCGCTACCCATTAAGAGCCACTGACAGATGCTGTAAAAATTCTCGAATTCCAGATACGCCAACGCGGGAGCAAGCCCCCGCGCGGCGACATCCTACCAGCTCACCGGCAAACGACGGTGAACCGGCCGACAACATGCAGGGATTACTGCTTGTTGTTGTCTTTCACTTCTTCGAACTCGGCGTCAACCACGTCATC  >  KT2440/5369255‑5369518

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑