Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,965,442 T→C 7.3% Y83H (TAC→CAC)  PP_3496 → endoribonuclease L‑PSP

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,965,4420TC 7.3% 156.9 / 2.8 55Y83H (TAC→CAC) PP_3496endoribonuclease L‑PSP
Reads supporting (aligned to +/- strand):  ref base T (24/27);  new base C (2/2);  total (26/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01

CTGGTCACCACGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGTGTGGAAGTGACGGCGATGG  >  NC_002947/3965295‑3965580
                                                                                                                                                   |                                                                                                                                          
cTGGTCACCACGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTa                                                                                                                                           <  4:235077/149‑1 (MQ=255)
cTGGTCACCACGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTa                                                                                                                                           >  8:32058/1‑149 (MQ=255)
  ggTCACCACGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTAcc                                                                                                                                         >  4:177455/1‑149 (MQ=255)
   gTCACCACGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGAGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTAc                                                                                                                                          <  5:15360/147‑1 (MQ=255)
      accacGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGAc                                                                                                                                     <  2:246734/149‑1 (MQ=255)
             aaaTCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTAc                                                                                                                                          <  8:4448/137‑1 (MQ=255)
             aaaTCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTAc                                                                                                                                          >  7:4448/1‑137 (MQ=255)
                 cccGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGcc                                                                                                                           >  6:217205/1‑148 (MQ=255)
                           gCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGc                                                                                                                >  7:252842/1‑149 (MQ=255)
                             cGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGt                                                                                                              >  7:40359/1‑149 (MQ=255)
                              gATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGtt                                                                                                             <  8:157434/149‑1 (MQ=255)
                                   cAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTAc                                                                                                                                          <  2:293117/115‑1 (MQ=255)
                                   cAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTAc                                                                                                                                          >  1:293117/1‑115 (MQ=255)
                                     gCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAg                                                                                                      <  5:45946/149‑1 (MQ=255)
                                       cTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGgt                                                                                                    <  5:217205/149‑1 (MQ=255)
                                        tGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAg                                                                                                      >  1:124354/1‑146 (MQ=255)
                                           aaCTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAgg                                                                                                     >  6:21985/1‑144 (MQ=255)
                                           aaCTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAgg                                                                                                     <  5:21985/144‑1 (MQ=255)
                                                 gcggcATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGc                                                                                                                >  6:283484/1‑127 (MQ=255)
                                                 gcggcATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGc                                                                                                                <  5:283484/127‑1 (MQ=255)
                                                       tcgtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCAGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGcttctt                                                                                     >  4:63073/1‑148 (MQ=255)
                                                         gtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAg                                                                                                      <  8:170680/129‑1 (MQ=255)
                                                         gtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAg                                                                                                      >  7:170680/1‑129 (MQ=255)
                                                         gtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCa                                                                                   <  8:40359/148‑1 (MQ=255)
                                                         gtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCa                                                                                   <  1:36457/148‑1 (MQ=255)
                                                         gtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCCACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGcttctt                                                                                     >  4:203724/1‑146 (MQ=255)
                                                         gtcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCCACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAg                                                                                  >  4:199731/1‑149 (MQ=255)
                                                          tcgAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCTCGTGCTGCACCTGAACATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAg                                                                                  >  5:324654/1‑148 (MQ=255)
                                                                      aaTGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGgt                                                                                                    <  4:52550/118‑1 (MQ=255)
                                                                      aaTGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGgt                                                                                                    >  3:52550/1‑118 (MQ=255)
                                                                         gCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGgtg                                                                  >  1:7489/1‑149 (MQ=255)
                                                                             ccTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGCCCATCTACCTGAACGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGgtgcgtg                                                              >  7:191628/1‑149 (MQ=255)
                                                                              cTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGgtgcgtgc                                                             <  2:7489/149‑1 (MQ=255)
                                                                                 cAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGACCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGtgcgtgcg                                                            <  3:177455/147‑1 (MQ=255)
                                                                                                  ccTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTgcgg                                                           <  8:216679/131‑1 (MQ=255)
                                                                                                  ccTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTgcgg                                                           >  7:216679/1‑131 (MQ=255)
                                                                                                  ccTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCAc                                         >  5:283503/1‑149 (MQ=255)
                                                                                                  ccTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCAc                                         >  8:243499/1‑149 (MQ=255)
                                                                                                      gAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCCACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGc                                     <  3:199731/149‑1 (MQ=255)
                                                                                                      gAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCCACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGc                                     <  3:203724/149‑1 (MQ=255)
                                                                                                          tggCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGCGCGGCGGTGGGTGTGGCTTCACTGGCCttt                                 <  8:263642/148‑1 (MQ=255)
                                                                                                            gCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTg                                >  2:191147/1‑148 (MQ=255)
                                                                                                            gCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGa                               <  7:32058/149‑1 (MQ=255)
                                                                                                             ccGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGaa                              <  8:252842/149‑1 (MQ=255)
                                                                                                                gTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGc                           <  3:63073/149‑1 (MQ=255)
                                                                                                                   gCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCAt                         <  1:191147/148‑1 (MQ=255)
                                                                                                                             ccGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGtgtg                  >  1:7551/1‑145 (MQ=255)
                                                                                                                             ccGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGtgtg                  <  2:7551/145‑1 (MQ=255)
                                                                                                                              cgcgTGCTGCACCTGACCATGTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACGAGCGCTTCTTCAGCAAGCGCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGTGTGGAAGt             <  8:191628/149‑1 (MQ=255)
                                                                                                                                cgTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCGTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTGCCCTGGCCTGTGAAGGCATGCGTGTGGAAGTGa           >  6:91676/1‑149 (MQ=255)
                                                                                                                                         ccTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGTGTGGAAGTGACGGCGATgg  <  6:127456/149‑1 (MQ=255)
                                                                                                                                              ccATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGTGTGGAAg              >  2:43249/1‑132 (MQ=255)
                                                                                                                                              ccATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGTGTGGAAg              <  1:43249/132‑1 (MQ=255)
                                                                                                                                                aTCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGc                           <  8:229699/117‑1 (MQ=255)
                                                                                                                                                aTCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGc                           >  7:229699/1‑117 (MQ=255)
                                                                                                                                                   |                                                                                                                                          
CTGGTCACCACGCAAATCCCGACCCACGCCGATGGCAGCCTGGAACTGGGCGGCATCGTCGAGCAGAGCGAATGCACCCTGCAGGCGCTGAAAGTGGCCCTGGAAAAGGCCGGTAGCGGTATGGACCGCGTGCTGCACCTGACCATCTACCTGACCGACATGGCCGACCGCGCAGCGTTCAACGAGGTGTACCAGCGCTTCTTCAGCAAGCCCTGGCCGGTGCGTGCGGCGGTGGGTGTGGCTTCACTGGCCTTTGAAGGCATGCGTGTGGAAGTGACGGCGATGG  >  NC_002947/3965295‑3965580

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑