Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,983,754 A→G 17.8% K26K (AAA→AAG rluA2 → pseudouridylate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,983,7540AG17.8% 43.3 / 4.2 23K26K (AAA→AAGrluA2pseudouridylate synthase
Reads supporting (aligned to +/- strand):  ref base A (14/4);  new base G (2/2);  total (17/6)
Fisher's exact test for biased strand distribution p-value = 2.92e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

AGTTATATTTCGGAGAACTGATTTGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCGATGAAAAAAGTAATTATGTTCCAAGTTATCGTTA  >  CP000730/1983620‑1983894
                                                                                                                                      |                                                                                                                                            
aGTTATATTTCGGAGAACTGATTTGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTa                                                                                                                                        >  2:225192/1‑141 (MQ=255)
          cGGAGAACTGATTTGTGATATGATATTAAAGGCTATAGGAGGATTTTATGAAATTTAAGGTACCAGAAAACTTTACTGACGCTAGTTGAGGAGATATTTTCTAACAACTTAAGGTACCTAACAACGTTTTACGTCAtttgg                                                                                                                              >  1:177160/1‑139 (MQ=255)
          cGGAGAACTGATTTGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTAGATCATTTaa                                                                                                                              >  1:72786/1‑141 (MQ=255)
           ggAGAACTGATTTGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTaaa                                                                                                                             >  1:213742/1‑141 (MQ=255)
                     tttGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAGGATTTACATCATTTAAATATGTCTaaa                                                                                                                   >  2:311335/1‑141 (MQ=255)
                     tttGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAGGATTTACATCATTTAAATATGTCTaaa                                                                                                                   >  2:282813/1‑141 (MQ=255)
                           atatgatatTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTGCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATAtt                                                                                                             <  1:334974/141‑1 (MQ=255)
                              tgatatTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACt                                                                                                          >  2:176480/1‑141 (MQ=255)
                                      aaGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAGGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGa                                                                                                  <  1:311335/141‑1 (MQ=255)
                                      aaGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAGGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGa                                                                                                  <  1:282813/141‑1 (MQ=255)
                                                gcggaTTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTgcg                                                                                        <  1:147755/139‑1 (MQ=255)
                                                        tATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAAGCTACGCGATTAAt                                                                                >  1:50040/1‑141 (MQ=255)
                                                         aTGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATg                                                                               >  1:346832/1‑141 (MQ=255)
                                                         aTGAAATTTAAAATACCAGAAAACGGTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTACGCGATTAATg                                                                               >  2:302171/1‑141 (MQ=255)
                                                                                 tttAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGAt                                                       >  2:62840/1‑141 (MQ=255)
                                                                                  ttAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATg                                                      >  1:362477/1‑141 (MQ=255)
                                                                                         cTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGt                                               <  2:210769/141‑1 (MQ=255)
                                                                                          ttAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGGGCATACTGGCGACGATGTATTTGtt                                              <  1:335842/141‑1 (MQ=255)
                                                                                                     agaTATTTTCCAGCAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAACCCTGAGCGATTAATGGATAAAGTGCGTACTAGCGACGATGTATTTGTTCCCAACATcaa                                   >  1:193380/1‑139 (MQ=255)
                                                                                                      aatatTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCgcg                                  >  2:178294/2‑139 (MQ=255)
                                                                                                         atTTTCCAACAACTTAGGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAATTGCATACTGGCCACGATGTATTTGTTCAATCCACCGATGaa                               >  1:74560/1‑141 (MQ=255)
                                                                                                                   aacTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCGATGAAAAAAGTAAtt                     >  1:236784/1‑141 (MQ=255)
                                                                                                                           gTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCGATGAAAAAAGTAATTATGTTCCa             >  2:332143/1‑141 (MQ=255)
                                                                                                                                     aaGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCGATGAAAAAAGTAATTATGTTCCAAGTTATCGtt   <  1:129150/141‑1 (MQ=255)
                                                                                                                                      aGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCGATGAAAAAAGTAATTATGTTCCAAGTTATCGTTa  <  2:190283/141‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                            
AGTTATATTTCGGAGAACTGATTTGTGATATGATATTAAAGACTATAGGAGGATTTTATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAACTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAATGATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACCATCGATGAAAAAAGTAATTATGTTCCAAGTTATCGTTA  >  CP000730/1983620‑1983894

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: