Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,562,169 C→T 7.9% P20L (CCG→CTG)  yffO → CPZ‑55 prophage; uncharacterized protein YffO

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,562,1690CT 7.9% 133.0 / 2.8 51P20L (CCG→CTG) yffOCPZ‑55 prophage; uncharacterized protein YffO
Reads supporting (aligned to +/- strand):  ref base C (23/23);  new base T (2/2);  total (26/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.82e-01

CGGTTTTTGTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAGATGATGCGCTGGCAACTG  >  NC_000913/2562030‑2562311
                                                                                                                                           |                                                                                                                                              
cGGTTTTTGTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTGGACATTTATGACACCAGCCAAACCCCGaa                                                                                                                                             >  2:347906/1‑143 (MQ=255)
cGGTTTTTGTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACCACGaa                                                                                                                                             >  1:856131/1‑143 (MQ=255)
cGGTTTTTGTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGaa                                                                                                                                             <  1:215939/143‑1 (MQ=255)
   tttttGTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGaaaaa                                                                                                                                          <  2:931495/143‑1 (MQ=255)
        gTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTGTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGcgcg                                                                                                                                     >  2:9180/1‑143 (MQ=255)
         tCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCgg                                                                                                                                    >  2:605430/1‑143 (MQ=255)
         tCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCgg                                                                                                                                    >  1:376756/1‑143 (MQ=255)
          cAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGATTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTAATAACACCAGCGAAACACCGAGAGAGGGCGGt                                                                                                                                   >  2:464407/1‑143 (MQ=255)
           aaTTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACTGAAAAAGCGCGGTc                                                                                                                                  >  1:340844/1‑143 (MQ=255)
           aaTTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACAAATATAACTCCTGCGAAACACTGAAAAAGCGCGGTc                                                                                                                                  >  1:410393/1‑143 (MQ=255)
           aaTTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATATATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTc                                                                                                                                  >  1:184923/1‑143 (MQ=255)
            atgttCAACCTCAAGTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCg                                                                                                                                 <  1:444814/140‑1 (MQ=255)
            aTTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCg                                                                                                                                 <  2:299208/143‑1 (MQ=255)
                               gggAAAAATGGCAAAAATAACGGTATTTTTCATGATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGaa                                                                                                              <  1:918451/141‑1 (MQ=255)
                                   aaaaTGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGaaaaaa                                                                                                          <  1:304859/143‑1 (MQ=255)
                                    aaaTGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCACGGTCGGCCAGCTAAATATAATGAAAAAAt                                                                                                         <  1:159098/143‑1 (MQ=255)
                                                    ggTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGGACTGATAGAAAACAATGGGTTAGACATTTATGACACCCGCGCAACACCGCACACCCGCCCTCGGCCACCTAAATATAACGACAAACTAGCCACTCAACTCGTc                                                                                         >  1:317049/1‑143 (MQ=255)
                                                         ttttCTTCGTATATTCGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGTTTAGCCATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTAtt                                                                                    <  2:898039/143‑1 (MQ=255)
                                                         ttttCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTAtt                                                                                    >  1:863513/1‑143 (MQ=255)
                                                          tttCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTg                                                                                   <  1:605430/143‑1 (MQ=255)
                                                              atcatTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTaa                                                                               <  1:906702/143‑1 (MQ=255)
                                                                 atTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCCAAATCTAACGAAAAAATAGCAACGCCCATCGTCCTAGTGCTAAGCg                                                                            >  2:39109/1‑143 (MQ=255)
                                                                 atTTATTGGGCGGTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCg                                                                            <  1:645487/143‑1 (MQ=255)
                                                                  tttATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCGAGCCAATTATAACGAAAAAATAGCACCGCAAATCGCCCTAAAGGTAAGCGa                                                                           >  2:980437/1‑143 (MQ=255)
                                                                   ttATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAGAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGaa                                                                          <  1:637801/143‑1 (MQ=255)
                                                                    tATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAg                                                                         <  2:376756/143‑1 (MQ=255)
                                                                          gggTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACTGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTtata                                                                   <  2:340844/143‑1 (MQ=255)
                                                                          gggTTTTATGGAAGGCGAACTGAGAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACTGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTtata                                                                   <  2:410393/143‑1 (MQ=255)
                                                                                    gAAGGCGAACTGATAGAAAACAATGGGTTAGACATGTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCaa                                                         <  2:86435/143‑1 (MQ=255)
                                                                                        gCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAGACACCGAAAAAGCGCGGACGGCCAGCTAAATATAATGAAAAAATAGCAACGCACAGCGCCCTATTGGTAAGCGAGGGTGATAGTTCGCGCAAGGTc                                                     >  2:127023/1‑143 (MQ=255)
                                                                                           accTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGc                                                  <  2:143360/141‑1 (MQ=255)
                                                                                           aaCTGATAGCAAACAATGGGTTAGACATTTATGTCACTAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGc                                                  <  1:33346/143‑1 (MQ=255)
                                                                                                aTAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTCGCGCAAGATCAGCatgat                                             >  1:434307/1‑143 (MQ=255)
                                                                                                 tAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTCAATATAAAGAAAAAATAGCAACGCACATCGTCCGATTGCTACGCGAAGCAGATAGTTTGCGAAAGATCAGcgagcgc                                            >  2:315243/1‑137 (MQ=255)
                                                                                                 tAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAGTCGTCCTACAGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCatgatg                                            >  2:221672/1‑143 (MQ=255)
                                                                                                    aaaaCAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCGGCTCAATATAATGAAAAAAAAGCAAAGCACCGCGTCCGACAGCCACGCACAGGTGATAGTTTGCGCAAGATAAGCATCACGCCa                                         >  2:629021/1‑143 (MQ=255)
                                                                                                             ggTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCg                                <  1:249325/143‑1 (MQ=255)
                                                                                                              gTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAACCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGa                               >  1:496123/1‑143 (MQ=255)
                                                                                                                tggACAGTTATCACACCAGCGAAACAACGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGc                             <  2:240626/141‑1 (MQ=255)
                                                                                                                 aGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGACGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGcc                            >  1:69725/1‑143 (MQ=255)
                                                                                                                   aCATTTATGACACCAACGAAACACCGAAAAAGCGCGGTCGGCCAGCTAATGATAATGAAAAAATAGAAACGCAAATCGGCCTATTGGTAAGCGAAGGCGATAGATTGCGCGCGATCGGCAGGATGCCCGGGAGGcccgggcac                          >  2:784087/1‑136 (MQ=255)
                                                                                                                   aCATTTATAACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAATGTAAGATGTTGCGCTAGATCAGCATGATGCCAGGGATGCCGAGCCAc                          <  1:418400/143‑1 (MQ=255)
                                                                                                                   aCATGTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCAc                          <  1:836273/143‑1 (MQ=255)
                                                                                                                          tGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAga                   <  1:156958/143‑1 (MQ=255)
                                                                                                                           gACACCAGCGAAACACCGAAAAAGCGCGGTCAGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAgat                  <  1:764762/143‑1 (MQ=255)
                                                                                                                             cacCAGCTAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAgatga                <  2:184923/143‑1 (MQ=255)
                                                                                                                               ccAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAGatgatg              >  1:831372/1‑143 (MQ=255)
                                                                                                                               ccAGCGAAACACAGAAAAAGCGCGGTCGGACAGCCAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATCGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGGCAGGGGTGCCGAGCCACGGTCAGctgatg              >  2:705740/1‑143 (MQ=255)
                                                                                                                                 aGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAACGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCACGATCAGCATGATGCCAAGGACGCCGAGCCCACGGCAGAAGGTgcc            >  2:396785/1‑142 (MQ=255)
                                                                                                                                     aaaCACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAGATGATGCGCTgg        >  1:156704/1‑143 (MQ=255)
                                                                                                                                        cacCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAGATGATGCGCTGGCaa     >  1:146137/1‑143 (MQ=255)
                                                                                                                                           cGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAGATGATGCGCTGGCAACTg  <  1:707864/143‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                              
CGGTTTTTGTCAATTTTCAACCTCAATTCTTGCGAAAAATGGCAAAAATAACGGTATTTTTCATCATTTATTGGGGGTTTTATGGAAGGCGAACTGATAGAAAACAATGGGTTAGACATTTATGACACCAGCGAAACACCGAAAAAGCGCGGTCGGCCAGCTAAATATAATGAAAAAATAGCAACGCAAATCGTCCTATTGGTAAGCGAAGGTTATAGTTTGCGCAAGATCAGCATGATGCCAGGGATGCCGAGCCACCGTCAGATGATGCGCTGGCAACTG  >  NC_000913/2562030‑2562311

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑