Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,751,080 T→A 16.1% S147T (TCG→ACG) ‡ PP_1551 → replication protein O

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,751,0800TA16.1% 56.7 / 2.8 29S147T (TCG→ACG) ‡PP_1551replication protein O
Reads supporting (aligned to +/- strand):  ref base T (8/16);  new base A (3/2);  total (11/18)
Fisher's exact test for biased strand distribution p-value = 3.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01

CCGAAGGACTGGATTTACGTTGATCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTGGCTGTCCGC  >  NC_002947/1750933‑1751226
                                                                                                                                                    |                                                                                                                                                   
ccGAAGGACTGGATTTACGTTGATCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATcttccttc                                                                                                                                                    <  7:34361/149‑1 (MQ=255)
    aGGACTGGATTTACGTTGATCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGaa                                                                                                                                                <  7:328299/149‑1 (MQ=255)
         tGGATTTACGTTGATCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCAGCCGCCCTTCGTTAGTCTAATAAAGCAACCCCCTATGTAACATCTTCCGAAGGAAGATg                                                                                                                                            >  6:320224/1‑149 (MQ=255)
            aTTTACGTTGATCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTAc                                                                                                                                        <  4:182556/149‑1 (MQ=255)
             tttACGTTGATCCGAAACAGACCAAAACAGCCTACTCGGATGAAGTGGTCCGAATCGTCTCATAGTCGAAACAGAACAAAACCGACGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTAc                                                                                                                                        <  5:272977/148‑1 (MQ=255)
                       tCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACGGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAACATCTTCCGAAGGAAGAT‑TTACAtagg                                                                                                                                   <  7:128556/143‑4 (MQ=255)
                       tCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACGGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAACATCTTCCGAAGGAAGAT‑TTACAtagg                                                                                                                                   >  8:128556/1‑140 (MQ=255)
                        ccGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGACCGACCCGATGTAA‑ATCTTCATTCGGAAGATGTTACATTCCCCCCCAg                                                                                                                            >  2:91944/1‑149 (MQ=255)
                         cGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGc                                                                                                                           <  7:184008/149‑1 (MQ=255)
                         cGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGc                                                                                                                           <  1:344990/149‑1 (MQ=255)
                          gAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCGAAGGAAGAT‑TTACa                                                                                                                                       >  3:226012/1‑135 (MQ=255)
                          gAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCGAAGGAAGAT‑TTACa                                                                                                                                       <  4:226012/135‑1 (MQ=255)
                                           ccGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGAt                                                                                                                                             >  8:13032/1‑113 (MQ=255)
                                             gACTCGGCTGAAGTGGTCCGACTCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAGCCCCCTATGTTA‑ATCTTACTTAGGAAGATGTTACTTTAAAGAACAGCGAGCCGGAGCCCACTcctg                                                                                                        >  2:131595/1‑146 (MQ=255)
                                             gACTCGGCTGAAGTGGTCCGACTCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAGCCCCCTATGTAA‑ATCTTACTTCGGAAGATGTTAGATTCAACCCCAGCCAACCGGAGCCGCCACCGGc                                                                                                       >  2:126460/1‑149 (MQ=255)
                                                    cTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGAt                                                                                                <  7:194398/149‑1 (MQ=255)
                                                      gAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAGGCCCCTATGTAA‑ATCTTCCGTCGGAAGATGGTAGATGCCGCCGCAGCGAGCCGGCGCCGACTCCGCCCAAGGATGa                                                                                              >  8:151995/1‑149 (MQ=255)
                                                                                                             tttATTCTAAGAAAGAGACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGACCACCCAGAGCGCCGGAGCCCCCTCCGCCCACCGAAGAGCGCAAGGCGCCCGACGGCCAAGCCGCC‑ATGCTGGCCGACAAACCGCACgcggag                                      >  4:215786/1‑144 (MQ=255)
                                                                                                             tttATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGTCGGCTCCGGctc                                                                                                     <  1:62285/87‑3 (MQ=255)
                                                                                                                aTTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGa                                    <  7:151995/148‑1 (MQ=255)
                                                                                                                 ttCTAAGAAAGAAACCCCCTATGTAA‑TTCTTCCTTCGGAAGATGTTACATGCCCACCCTGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCATGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGAt                                   <  1:277351/148‑1 (MQ=255)
                                                                                                                     aagaaagaAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCt                                       <  3:313387/140‑1 (MQ=255)
                                                                                                                     aagaaagaAACCCCCTATGTAA‑ATCTTACTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑AGCCTGGCCCACAAACCCCACCCGCTCGAGGCATc                              >  4:125890/1‑149 (MQ=255)
                                                                                                                      agaaagaaACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAAt                               <  3:174565/147‑1 (MQ=255)
                                                                                                                                      cttAA‑ATCTTCCTTCGGAATATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTAc              <  5:19740/146‑1 (MQ=255)
                                                                                                                                         aa‑aTCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTACGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTat              >  6:19740/1‑144 (MQ=255)
                                                                                                                                         aa‑aTCTTCCTTCGGAAGATGTTAAATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCCTTTGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACtt            <  1:91944/148‑1 (MQ=255)
                                                                                                                                          a‑aTCTTCCTTCGGAATATGTTACATGCCCCCCCAGCGATCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTgg          <  1:131595/148‑1 (MQ=255)
                                                                                                                                          a‑aTCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTgg          <  3:125890/148‑1 (MQ=255)
                                                                                                                                          a‑aTCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTgg          <  1:126460/148‑1 (MQ=255)
                                                                                                                                               ttccttcGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTGGCTGTc     >  7:63448/1‑149 (MQ=255)
                                                                                                                                               ttccttcGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTGGCTGTc     >  8:268978/1‑149 (MQ=255)
                                                                                                                                                  cttcGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTGGCTGTCCGc  <  3:215786/149‑1 (MQ=255)
                                                                                                                                                   ttcGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTGGCTGTCCGc  >  6:37099/1‑148 (MQ=255)
                                                                                                                                                    |                                                                                                                                                   
CCGAAGGACTGGATTTACGTTGATCCGAAACAGACCAAAACAGCCGACTCGGCTGAAGTGGTCCGAATCGGCTCAGAGTCGAAACAGACCAAAACCGCCGACTCCCTTCTTTATTCTAAGAAAGAAACCCCCTATGTAA‑ATCTTCCTTCGGAAGATGTTACATGCCCCCCCAGCGAGCCGGAGCCGACTCCGGCCAAGGATGAGCGCAAGGCTCCCTTCGGCAAAGCCGCC‑ATGCTGGCCGACAATCCGCACGGGCTCGATGAATCCCTGATCGCTGATTACTTGGCTGTCCGC  >  NC_002947/1750933‑1751226

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑