Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 1,226,832 T→G 11.0% F78C (TTT→TGT)  ycgJ → PF05666 family protein YcgJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,226,8320TG11.0% 101.2 / 7.8 47F78C (TTT→TGT) ycgJPF05666 family protein YcgJ
Reads supporting (aligned to +/- strand):  ref base T (25/16);  new base G (2/3);  total (27/20)
Fisher's exact test for biased strand distribution p-value = 6.35e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.05e-02

AATCTCCGGCGTGCGGCGTTGTTTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGT  >  NC_000913/1226691‑1226971
                                                                                                                                             |                                                                                                                                           
aaTCTCCGGCGTGCGGCGTTGTTTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAAttt                                                                                                                                            <  1:722220/143‑1 (MQ=255)
aaTCGCCGGCGTGCGGCGTTGTTTGCGACCCGTATATTTGGGTGAACTCAGATGGCATTACCCCAGAGTTAACATGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAAttt                                                                                                                                            <  1:722306/143‑1 (MQ=255)
 aTCTCCGGCTTCCCGCGTTGTTTGCGACCCGTCTATTTGTGGGCACCCCGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTa                                                                                                                                           <  2:222586/143‑1 (MQ=255)
      cGGCGTGCGGCGTTGTTTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTc                                                                                                                                      >  1:38709/1‑143 (MQ=255)
      cGGCGTGCGGCGTTGTTTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTc                                                                                                                                      >  2:340587/1‑143 (MQ=255)
         cgagcggccTGGTTTGCGACCCGTATAGTTGCGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATGTAAATTCGCt                                                                                                                                   <  1:250276/140‑1 (MQ=255)
          gTGCGGCGGTGTTGGCGACGCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATGTAAATTCGCtg                                                                                                                                  <  2:106576/143‑2 (MQ=255)
           cgcggcgTTGTGGGCGACCCGTATATTTGGGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATGTAAATTCGCtgg                                                                                                                                 <  1:528764/142‑3 (MQ=255)
               gcgTTGTTTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTTGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCGCAGCGAATTTACATTCGCCAAAGgt                                                                                                                             >  2:72009/1‑143 (MQ=255)
                  ttgttTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTa                                                                                                                          >  1:483755/1‑143 (MQ=255)
                  ttgttTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTa                                                                                                                          <  2:20265/143‑1 (MQ=255)
                          gACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCgc                                                                                                                  >  1:271992/1‑142 (MQ=255)
                           aCCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAACACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGAt                                                                                                                 >  2:129588/1‑143 (MQ=255)
                             cgggttatTGGTGTGAACTGGGATGGGCTTGCCCCAGAGTTGACGCGGAAATATCTCGGGGAAAAAGCCTCTGAAAACTTACATTCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGt                                                                                                               <  2:348484/138‑1 (MQ=255)
                             cacgatatTTGTGGGAACTCAGATGGCATGTCCCCAGTGTCAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGt                                                                                                               <  2:362447/139‑1 (MQ=255)
                               gTATATTTGTGTGAACTCGGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTa                                                                                                             >  1:292542/1‑143 (MQ=255)
                                ttgatctgtgtgAACCGAGGTGGCATTTCGCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTaa                                                                                                            <  2:106721/137‑1 (MQ=255)
                                       gtgtgAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAGAGcaaag                                                                                                     >  2:651857/1‑142 (MQ=255)
                                          tgAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTa                                                                                                  >  1:498880/1‑143 (MQ=255)
                                               tCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCg                                                                                             >  2:744195/1‑143 (MQ=255)
                                                        aTTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGCTGGTCAAGAAAAATCATGTCGTGATGCTCg                                                                                    >  2:711494/1‑143 (MQ=255)
                                                              ccAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCTCTAACGGTGTACCTTACAACGTGAAAGAAACATTATGTAGTGATCATAGGTAttt                                                                              >  2:762037/1‑143 (MQ=255)
                                                               cAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTAtttt                                                                             >  1:164760/1‑143 (MQ=255)
                                                                agagTTAACAGGTAAATATCTCGGCGGAAAATCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTAAACGAAAAATTATGTCGTGATGATCGTTATTTTg                                                                            <  2:688421/143‑1 (MQ=255)
                                                                      aaCAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTgg                                                                      >  1:620042/1‑143 (MQ=255)
                                                                             aaaTATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTAAATTCGATAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTaa                                                               >  2:50255/1‑143 (MQ=255)
                                                                                    tcGGCGAAAAAGGCGCTGAAGACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGt                                                        <  1:736053/143‑1 (MQ=255)
                                                                                       gCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGa                                                     <  2:402453/143‑1 (MQ=255)
                                                                                        cGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGaa                                                    <  1:129588/143‑1 (MQ=255)
                                                                                         gAAAAAGCCGCTGAAAACTTACAAAATATACAAGTCTACGATCCCAGCGAACTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAGTTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGaaa                                                   >  1:298080/1‑143 (MQ=255)
                                                                                               gCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAaatcaa                                             <  1:372870/143‑1 (MQ=255)
                                                                                                   cTGAAAACTTCCAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAAtcaatcaa                                         <  2:292542/143‑1 (MQ=255)
                                                                                                    tGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGTGTGGAAAAatcaatcaca                                        >  2:400416/1‑141 (MQ=255)
                                                                                                      aaaaCTTACAATCATTACAAGGCTACGATGCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAacc                                      <  2:46887/143‑1 (MQ=255)
                                                                                                             aCAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACaa                               >  2:174773/1‑143 (MQ=255)
                                                                                                              ccttCATTCCAAGGCTACGTTCCCAGCGAATCTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACaaa                              <  2:669294/140‑1 (MQ=255)
                                                                                                               aaTCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAg                             >  2:355180/1‑143 (MQ=255)
                                                                                                                aTCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGa                            >  2:748111/1‑143 (MQ=255)
                                                                                                                 tCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTACAGCAAAATTATGTCGTGATGATCGTTATTTTGCTGTGGATGGTAAGCGGCGTGCAACAATCGATCAAACCACCACCACGAt                           >  2:265288/1‑143 (MQ=255)
                                                                                                                     tACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGGTGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGtta                       >  2:273209/1‑143 (MQ=255)
                                                                                                                     tACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGtta                       <  2:38709/143‑1 (MQ=255)
                                                                                                                                 ccgttaGCGAATGTAAATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGTAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCgt           >  1:388550/6‑143 (MQ=255)
                                                                                                                                 agcctaGCCAATTTACATTCGCTAACGGTGTATTTTGCGATGTAAGAGTAAAGTTATGTAGTAATGATCGTTATTTTGGTGTGGTTTGTAAGGGTAGTTGAAATATCAATCAAACCACCACAAAGATGTTATTTATGTGTCgt           <  1:701368/138‑1 (MQ=255)
                                                                                                                                 aTCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCgt           >  1:535676/1‑143 (MQ=255)
                                                                                                                                 aTCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCgt           >  1:391031/1‑143 (MQ=255)
                                                                                                                                  tCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGCGTGGAAAAATCAATGAACCCACCACAAAGATGTTATTTATGTGTCgtg          >  2:194036/1‑143 (MQ=255)
                                                                                                                                     taGCGAATGTAAATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTGATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAAGCACCACAAAGATGTTATTTATGTGTCttgcgt       >  2:43239/2‑143 (MQ=255)
                                                                                                                                        ggagtttACATTCGCCAACGGTGCATTTTGCCATGTTAAAGAAAAACTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGAt    <  1:418000/139‑1 (MQ=255)
                                                                                                                                        cGAATTTACATTCGCTAACGGTGTATTTTGCTATGTTAAAGAAAAATTATGTTGTGATGATTGTTATTTTGGTGTGGATGGTAAGAGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGAt    <  1:240138/143‑1 (MQ=255)
                                                                                                                                          aaTTTACATTCGTTAACGGTGTGTTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCTCCACAAAGATGTTATTTATGTGTCGTGAGTGATGt  <  2:661088/143‑1 (MQ=255)
                                                                                                                                             |                                                                                                                                           
AATCTCCGGCGTGCGGCGTTGTTTGCGACCCGTATATTTGTGTGAACTCAGATGGCATTTCCCCAGAGTTAACAAGGAAATATCTCGGCGAAAAAGCCGCTGAAAACTTACAATCATTACAAGGCTACGATCCCAGCGAATTTACATTCGCTAACGGTGTATTTTGCGATGTTAAAGAAAAATTATGTCGTGATGATCGTTATTTTGGTGTGGATGGTAAGCGGAGTGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGT  >  NC_000913/1226691‑1226971

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑