Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,542,683 Δ1 bp intergenic (+50/‑432) fimE → / → fimA regulator for fimA/type 1 fimbriae major subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,542,6830T.88.9% 24.4 / ‑2.9 9intergenic (+50/‑432)fimE/fimAregulator for fimA/type 1 fimbriae major subunit
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base . (6/2);  total (6/3)
Fisher's exact test for biased strand distribution p-value = 3.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01

AGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAA‑CTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATT  >  NC_000913/4542479‑4542929
                                                                                                                                                                                                            |                                                                                                                                                                                                                                                       
aGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATACATAAGTTACGTATTTTTtctc                                                                                                                                                                                                           >  1:214294/1‑250 (MQ=255)
         cAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaa                                                                                                                                                                                                  >  1:194825/1‑250 (MQ=255)
                     tAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAACGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATAATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaaa                                                                                                                                                                                      >  2:105773/1‑250 (MQ=255)
                                   ctcGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCt                                                                                                                                                                       >  2:30082/1‑251 (MQ=255)
                                                                                               gacagATTATGAGAAATAAATAATCTCATAAACGAAAAATTAAAAAGAAAAGAGTTTTGTTTTAACTGATTGATAATAAAGTTAAAAAAACAAATAAATACAAGGCAATTGTG‑CCAAAGCAGTCCATATCATAAATAAGTTACATATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAATAAACAACTTACTGTTCACTACTTAAATTATTCCTATTGTAAATTAATTTCACATCACATCCTCTatat                                                                                                           <  2:32828/247‑1 (MQ=255)
                                                                                                             aagaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGATTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCAATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATTTAATTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAATCTAATGtt                                                                                             >  2:137719/1‑251 (MQ=255)
                                                                                                                                               gaagagGATTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAACTACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCCTCTTCCTCATtcttctat                                                           >  1:156405/1‑249 (MQ=255)
                                                                                                                                                          aTTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTATCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCGCCTCCGCTATATGTAAAGCTAACGTGTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAaccac                                                <  1:136921/251‑1 (MQ=255)
                                                                                                                                                                            aaaGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCGTCTCTCCAAAAACCACCTCATGCAATATAAACAt                              <  2:49869/251‑1 (MQ=255)
                                                                                                                                                                                                         caatGGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACACAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATAtt  >  1:265481/4‑251 (MQ=255)
                                                                                                                                                                                                            |                                                                                                                                                                                                                                                       
AGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAA‑CTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATT  >  NC_000913/4542479‑4542929

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑