Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,875,384 G→A Q65* (CAA→TAA)  nimR ← DNA‑binding transcriptional repressor NimR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,875,3840GA96.0% 80.3 / ‑3.7 25Q65* (CAA→TAA) nimRDNA‑binding transcriptional repressor NimR
Reads supporting (aligned to +/- strand):  ref base G (0/1);  new base A (18/6);  total (18/7)
Fisher's exact test for biased strand distribution p-value = 2.80e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01

AAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTGTGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTATCAGCTGTCCTTTGC  >  NC_000913/1875307‑1875461
                                                                             |                                                                             
aaacagaaaacagaGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATgg                                                                            >  1:343388/1‑81 (MQ=255)
    agaaaacagaGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATggcgg                                                                         >  1:343399/1‑80 (MQ=255)
           agagTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATcc                                                                 <  1:343364/81‑1 (MQ=255)
              gTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCcac                                                               >  2:343395/1‑80 (MQ=255)
                 cAGCATTAGCCGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACaaa                                                            <  1:343365/80‑1 (MQ=255)
                  aGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAg                                                           >  2:343387/1‑80 (MQ=255)
                   gCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCa                                                         <  2:343366/81‑1 (MQ=255)
                     aTTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCAtt                                                       >  2:343403/1‑81 (MQ=255)
                      ttAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCAttt                                                      >  1:343380/1‑81 (MQ=255)
                           tGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCAc                                                 >  2:343409/1‑81 (MQ=255)
                               aCTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTa                                             >  1:343402/1‑81 (MQ=255)
                                   gATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACa                                           <  1:343367/79‑1 (MQ=255)
                                   gATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAgg                                         >  1:343382/1‑81 (MQ=255)
                                          aTGTTCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTg                                   >  1:343406/1‑80 (MQ=255)
                                              tCCACCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCa                              >  2:343392/1‑81 (MQ=255)
                                                 aCCCCGCCCGGTATCCAAACCGCATATTGTGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGt                           <  1:343368/81‑1 (MQ=255)
                                                 aCCCCGCCCGGTATCCAAACCGCATATTATGGCGGCACCGTCCCCAAAGCTTTTTCCACCGTACAGGTAATTGCACCATGt                           <  2:343369/81‑1 (MQ=255)
                                                       cccgGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAgcgc                      >  2:343397/1‑80 (MQ=255)
                                                         cgGTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAg                   >  1:343398/1‑81 (MQ=255)
                                                           gTATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTa                 <  1:343370/81‑1 (MQ=255)
                                                            tATCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTAt                >  2:343401/1‑81 (MQ=255)
                                                             aTCCAAACCGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTAt                >  1:343405/1‑80 (MQ=255)
                                                                     cGCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTATCAGCTGTcc       >  2:343396/1‑81 (MQ=255)
                                                                      gCATATTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTATCAGCTGTCCt      >  2:343417/1‑81 (MQ=255)
                                                                          atTATGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTATCAGCTGTCCTTTGc  >  2:343412/1‑81 (MQ=255)
                                                                             |                                                                             
AAACAGAAAACAGAGTTCAGCATTAGCTGTTACTTGATTGCTATGTTCCACCCCGCCCGGTATCCAAACCGCATATTGTGGCGGCACCATCCACAAAGCATTTTCCACCGTACAGGTAATTGCACCATGTAGCGCCAGTATCAGCTGTCCTTTGC  >  NC_000913/1875307‑1875461

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑