Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,440,147 G→A L295F (CTT→TTT)  rpoA ← RNA polymerase subunit alpha

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,440,1470GA94.3% 78.4 / ‑4.3 36L295F (CTT→TTT) rpoARNA polymerase subunit alpha
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (18/15);  minor base T (0/2);  total (19/17)
Fisher's exact test for biased strand distribution p-value = 2.29e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCA  >  NC_000913/3440027‑3440269
                                                                                                                        |                                                                                                                          
aCCTGTGATCCGGTTTCTCGTCAGCGATGCTTGCCTAAGGCAAATATTCCAGGAGCATACCAATAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTCCCAAAGTTAGGCg                                                                                                                    >  1:197721/1‑129 (MQ=255)
aCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGACGAACAGTTTTCCAAGCAAATGACCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACAAAAGTTAGGCg                                                                                                                    >  1:177991/1‑129 (MQ=255)
  cTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTTCACGTGTAGCTAGTACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGtt                                                                                                                  <  1:159636/129‑1 (MQ=255)
  cTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGtt                                                                                                                  >  1:239440/1‑129 (MQ=255)
    gtgATCCGGTTACTCGTCCGCGATGCTTGCCGGTGGCAAGTTTTCCAAACGAATGCCCAGAGACAGTCAACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCGAAGTTAGGCGtttt                                                                                                                >  1:81713/1‑129 (MQ=255)
     tgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTa                                                                                                               <  2:239440/129‑1 (MQ=255)
           ggTTAGTCGTCAGCGATGCTTGCCGGTGGCCGGTTTTCCCGGCGCNTGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTGTCATTTTTAATCGTTTTAAGGAGc                                                                                                         <  2:324146/129‑1 (MQ=255)
               aCTCGGCAGCGATGCGTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCaa                                                                                                     <  2:435591/129‑1 (MQ=255)
                cTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGTCAGTTCTTCTTTAATCTCAGTTAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAAc                                                                                                    <  1:199906/129‑1 (MQ=255)
                 tCGTCAGCGATGCTTGCCGGTGGCAAGTTTTCCAGGCGCATGCCCAGAGACACTCCACGGGAAGCCAGCACGTCTTTAATCCCCGTAAGAGATTTTTTACCAACGTTAGCCCGTTAAAGCAACTCaaac                                                                                                   >  2:535071/1‑127 (MQ=255)
                    tCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCCACCTCg                                                                                                >  2:341784/1‑129 (MQ=255)
                      aGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCTCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATTTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCGCGGt                                                                                              <  1:652790/129‑1 (MQ=255)
                              ttGCCGGTTGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCATCACGTCTTTAATCTCTTTTTTATATTTTTTACTAAAGTTAGGCGAGGTAAGGAGCGCAACCTCGGTACGCTGTa                                                                                      <  1:546603/129‑1 (MQ=255)
                               tGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCAAGGGAAACCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTAc                                                                                     >  1:463294/1‑129 (MQ=255)
                                  cGGTGGCCAGTTTTCCAGGCGCATGCCGAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAg                                                                                  <  2:617045/129‑1 (MQ=255)
                                      ggCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCa                                                                              >  1:44605/1‑129 (MQ=255)
                                             tttCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAGGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGatat                                                                       >  2:245269/1‑129 (MQ=255)
                                               tCCAGCCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTTATTCAGCGTTTATTTACCATAGTATTTCGTTTTTAGATTCTTAACCTCTAAACGCTGAACCAGATCACCGttattg                                                                     <  1:129094/129‑3 (MQ=255)
                                                    tcgcACGCGCAGAAACAGTCTACGGGAAGCCAGCACGCCTTTAACGTAAGTAAGAGATTTTTTACTAAAGTTAGGCGTTTTAAGGGGCTCAATATCGGTACGCTGTACCAGATCACCGATATAGTGGAt                                                                <  1:251905/128‑1 (MQ=255)
                                                     cgcATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATa                                                               <  2:299578/129‑1 (MQ=255)
                                                      gcATGCCCCGAGACAGTCCACGGGAAGCCAACACATATTTAATAACAAAAAGAGATTTTTTAACAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAg                                                              >  1:23659/1‑129 (MQ=255)
                                                       cATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAGCAAAGTTAGGCGTTTTAAGGAGCTCAAACTCGGTACGCTGTACCAGATCACCGAGATAGTGGATAGc                                                             >  2:509870/1‑129 (MQ=255)
                                                       cATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCACAATAAGAGAATTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGGTAGc                                                             >  1:359209/1‑129 (MQ=255)
                                                               gagaCAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAATGTTAGGCGTTTTAAGGTGCTCTTTCTTTGTTCTTTTTACCAGATCACCGATATAGTGGATAGCTTCTGCtt                                                     <  1:213811/129‑1 (MQ=255)
                                                                          cGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTa                                          <  2:44605/129‑1 (MQ=255)
                                                                          cGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATAACCGATATAGAGGATAGCTTCTGCTTTAAGGCAGTTa                                          >  2:650904/1‑129 (MQ=255)
                                                                           gggAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCCGTTAg                                         >  2:404038/1‑129 (MQ=255)
                                                                           gggAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGAGAATTAAAAAGCACAACCTTGGTCAAAAAATTGAGATCAACGATACAGTGGATAGCTTCTGCTTCAAGGCAGTTAg                                         >  1:99642/1‑129 (MQ=255)
                                                                            ggAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGATCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGc                                        >  1:210902/1‑129 (MQ=255)
                                                                                gCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGCACGCGGTACAAGATCACCGCCACAAGTGAGAGCTTCTGCTCTAAGGCAGTTAGCagag                                    >  2:437356/1‑129 (MQ=255)
                                                                                      tcGTCTTGAATCGCGGTAGGGGATTTTTTACCACAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACa                              <  2:590630/128‑1 (MQ=255)
                                                                                                  tcAGTAAGAGATTTTTTACCAAAGTTAGGCGGTTTAAGGAGCTCAACCTCGGTACGCTGTACTAGATCTCTGATATAGTGGTTAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGa                  <  1:228547/129‑1 (MQ=255)
                                                                                                      tAAGAGATTTTTTACCAAAGTTAGGCGTTTTAAGGAGATCAACCTCGGTACGCTGTAACAGATCACAGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGt              >  1:437961/1‑129 (MQ=255)
                                                                                                        agagATTTTTTGCCAAAGTTAGGCGTTTTAAGGGGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCa            <  2:116027/129‑1 (MQ=255)
                                                                                                            aTTTTTTACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGTACAGTCAATTCCAGATCGTCAACAg        <  2:322019/129‑1 (MQ=255)
                                                                                                                  tACCAAAGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTGAACAGGGCgca  >  2:527559/1‑129 (MQ=255)
                                                                                                                        |                                                                                                                          
ACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGGCGTTTTAAGGAGCTCAACCTCGGTACGCTGTACCAGATCACCGATATAGTGGATAGCTTCTGCTTTAAGGCAGTTAGCAGAGCGGACAGTCAATTCCAGATCGTCAACAGGGCGCA  >  NC_000913/3440027‑3440269

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑