Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 1,190,446 A→G 10.6% M1T (ATG→ACG) † phoP ← DNA‑binding transcriptional dual regulator PhoP

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,190,4460AG10.6% 82.6 / 3.7 38M1T (ATG→ACG) †phoPDNA‑binding transcriptional dual regulator PhoP
Reads supporting (aligned to +/- strand):  ref base A (18/16);  new base G (2/2);  total (20/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.07e-01

TATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTTAATAAGCAGGCCGGAC  >  NC_000913/1190309‑1190586
                                                                                                                                         |                                                                                                                                            
tatCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCAttttt                                                                                                                                         <  2:741911/143‑1 (MQ=255)
tatCCGGGATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCAttttt                                                                                                                                         <  2:743908/143‑1 (MQ=255)
                  tGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAat                                                                                                                       <  1:775809/143‑1 (MQ=255)
                    agaTAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAATGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAatta                                                                                                                     <  1:772085/143‑1 (MQ=255)
                       taataaTCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATAAGTAGATTTATGAATTTTGACTTTAAGGTGGTGACGTAACAATGCATTAGCAAATATTTGCTGTCCGCGCATTTTTATTTCTCCATGTCTTGAttatta                                                                                                                  >  2:723723/1‑143 (MQ=255)
                           aatCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAACAt                                                                                                              >  2:480844/1‑143 (MQ=255)
                            atCGGCTTCTTTGGCATCTTCTGCGTCATCGCCCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATa                                                                                                             <  1:223099/143‑1 (MQ=255)
                                    cttTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTACTTATTAAAATAGTGTAAcg                                                                                                     >  1:298659/1‑143 (MQ=255)
                                        ggCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATCGTGTACCGCGAt                                                                                                 >  2:741234/1‑143 (MQ=255)
                                         gCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCGTTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGAtt                                                                                                >  2:593590/1‑143 (MQ=255)
                                         gCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGCCTTCAACAACCAGCACGCGCGTTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGAtt                                                                                                >  2:200943/1‑143 (MQ=255)
                                                ctGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATCGTGTAACGCGTTTATGTGGt                                                                                         >  1:434619/1‑143 (MQ=255)
                                                    gTCATCGACCTGATGACCAGCATCCTGAATCTGCACTTTAAGGTGGTGACGTAACAACACATCGTCTTCAACAACCAGTACGGGCATTTTGATGATCAACTGTCTCCATCCTCAGAATAGTGTAACGCGCTTATGTGCGTATg                                                                                     >  2:514574/1‑143 (MQ=255)
                                                                atgaCCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGCTTATGTGGTTATGGGGGTAAACAtt                                                                         <  2:774125/143‑1 (MQ=255)
                                                                          tCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAGATAAACCa                                                               >  1:243366/1‑143 (MQ=255)
                                                                            cttaaTCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATGTTTCTTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGc                                                             <  1:522794/140‑1 (MQ=255)
                                                                              gAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAAGTATTAAAATAGTGTAACGCGCTTATGTGGTTATGGGGCTTAACATTAACTAAAGCAGCgg                                                           >  2:191088/1‑143 (MQ=255)
                                                                                 tCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTACAATAGTGTAACGCGATTATGTGGTTATGGGGCGACACATCAAATGAACCAGAgggtg                                                        >  1:206201/1‑141 (MQ=255)
                                                                                 tCTGAACTTTAAGGCGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCgggga                                                        <  1:156674/143‑1 (MQ=255)
                                                                                   tGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTCTTAAAATAGTGTAACGCGATTATGTGCTTATGGAGCGAAACATCACATACACCACCggggagg                                                      >  2:63617/1‑143 (MQ=255)
                                                                                    tatcTTTAGTGTGGGGGCGTAACAACGCATTGTCTTCAACAAGCAGTAATCGGATTGTGATTTCTCCCTGTGTTAATTATTAAAATAGTGTAATGCGATGAGGTGGTTATGGGGGTAAACATTAAATAAACCAGCggggaggg                                                     <  2:311954/140‑1 (MQ=255)
                                                                                    gAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCggggaggg                                                     <  1:499005/143‑1 (MQ=255)
                                                                                                   gACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATATTGTAACGCGATTATGTGGTTATGGGGGTAAACATTATATAAACCAGCAGGCAGTGGTGGTAAAGTCaaaa                                      >  2:570641/1‑143 (MQ=255)
                                                                                                        aacaacGCCTAGTATTCAACACCCAGTACGCGCATTTTTATTTCTCCCTATCTTAATTATTAAAATAGCATAACGCGAATATGTGGTTATGGGAGAAAACATTAAATAAACCAGCGCGGAGGGGAGGTAAAGTGAAAAAATaa                                 <  2:585644/143‑1 (MQ=255)
                                                                                                          caacGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGGGAAAAAAGaaca                               >  1:456025/1‑141 (MQ=255)
                                                                                                          caacGCATCGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATagaa                               >  1:720523/1‑143 (MQ=255)
                                                                                                           aacGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGGAGAAATagaaa                              >  1:464027/1‑143 (MQ=255)
                                                                                                            acGCGTGGTCTGCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAg                             <  2:738590/143‑1 (MQ=255)
                                                                                                            acGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAg                             >  1:740014/1‑143 (MQ=255)
                                                                                                              gCATTGTCTTCAAGAACCAGGACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGGAACGCGATTAGGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCg                           <  1:94950/143‑1 (MQ=255)
                                                                                                              gCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCg                           <  1:514110/143‑1 (MQ=255)
                                                                                                                      ttCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCt                   >  1:475446/1‑143 (MQ=255)
                                                                                                                            aacCAGTACGCGCGTTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTtaataa             <  1:200943/143‑1 (MQ=255)
                                                                                                                            aacCAGTACGCGCGTTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTtaataa             <  1:593590/143‑1 (MQ=255)
                                                                                                                               cAGTACGCTCATTTTTATTTCTCCCGGTATTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAAACAGCGGGTAGGTGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTTAATAAGCa          <  2:357503/143‑1 (MQ=255)
                                                                                                                               cAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTTATTAAGCa          >  1:395464/1‑143 (MQ=255)
                                                                                                                               cAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTTAATAAGCa          <  1:194960/143‑1 (MQ=255)
                                                                                                                                       gcATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGCGGTAAAGTGAAACACTAAACAGCGGATCATCTTAATAAGCTGGCCGCAc  >  1:145574/1‑143 (MQ=255)
                                                                                                                                         |                                                                                                                                            
TATCCGGTATATGTTCATTGAGATAATAATCGGCTTCTTTGGCATCTTCTGCGTCATCGACCTGATGACCAGCATCCTGAATCTGAACTTTAAGGTGGTGACGTAACAACGCATTGTCTTCAACAACCAGTACGCGCATTTTTATTTCTCCCTGTCTTAATTATTAAAATAGTGTAACGCGATTATGTGGTTATGGGGGTAAACATTAAATAAACCAGCGGGGAGGGGAGGTAAAGTGAAAAAATAAAAAGCGGATAATCTTAATAAGCAGGCCGGAC  >  NC_000913/1190309‑1190586

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: ‑