Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,542,692 +A intergenic (+59/‑423) 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_0009134,542,6921.A86.7% 31.5 / ‑1.6 15intergenic (+59/‑423)fimE/fimAregulator for fimA/type 1 fimbriae major subunit
Reads supporting (aligned to +/- strand):  ref base . (2/0);  new base A (7/6);  total (9/6)
Fisher's exact test for biased strand distribution p-value = 4.86e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAA‑CTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATA  >  NC_000913/4542445‑4542942
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                          
atGTTAAGGTATTCTTGCGGTTATGAATTGGCGGAGCGTGTTGCAGATACTCGTTTAATTCAGGATTATCCCGGGCATCGAAATATTCGCGATACTGTTCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCaaaact                                                                                                                                                                                                                                                          <  1:35874/250‑4 (MQ=255)
         cATGCTTGGGGTTATGAATGGGCGGAGCGTGGTGCAGATACCCGTTTAATTCAGGATTATCCCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCa                                                                                                                                                                                                                                                <  1:524853/251‑1 (MQ=255)
                       tGAATTGGCGGAGCGAGATGCAGAAAATCGGTTAATACAGGCTTATCTCGGGCATCGACATTTTCGCCATACTGTGCGTTATAACGCCAGTAATGCTGCTAGTTTTGCCGGATTATGGGAAAGAAATAATCTCTTAAACGAAAAATTAACCAGAGAAGAGGTTTGATTTCACTTATTGATAATAAAGTTAAAAAAAAGAATAAATCCCAGACACTGGGTACAAAA‑CTGTCcataacataattacgttccat                                                                                                                                                                                                                                  >  2:569078/1‑240 (MQ=255)
                                                         aTTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACg                                                                                                                                                                                                 >  1:184016/1‑250 (MQ=255)
                                                            cAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATAAAGCAAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAACAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTAAGTATTTTTTCTCAAGCATACAAATATTAAAAAAcaacc                                                                                                                                                                                              >  2:229075/1‑246 (MQ=255)
                                                                                                                gTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTc                                                                                                                                          >  1:245098/1‑250 (MQ=255)
                                                                                                                                      aTTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTaa                                                                                                                    >  1:470547/1‑250 (MQ=255)
                                                                                                                                                agaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGttt                                                                                                         <  1:94391/251‑1 (MQ=255)
                                                                                                                                                 aaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTc                                                                                                        <  1:297022/250‑1 (MQ=255)
                                                                                                                                                         ctcATCAACGTAAAATTACAAATAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGt                                                                                                                                                     >  2:616566/1‑198 (MQ=255)
                                                                                                                                                         ctcATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATGGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGt                                                                                                                                                     <  1:616566/198‑1 (MQ=255)
                                                                                                                                                                      aaTTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTATAAAAAAAAAGAAATACACGACAATGGGGACAAAA‑CTGTCCATATCATAAATAAGTTACGACTTTTTTCTCAAGAATACAACTATTAAACAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCCCATCACCTCCGCTATATGTACAGCTAACGTTTCTGTGGCTCGACGCCTCTTcac                                                                                   >  2:351175/1‑249 (MQ=255)
                                                                                                                                                                                agaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTtctc                                                                         <  1:211909/251‑1 (MQ=255)
                                                                                                                                                                                              ttAACTTATTTATAATAAAGTTAAAAAAACAAATAAATATAAGATAAT‑GGGGCCAAAACTGTCCATATCAAAAATAAATTACGTATTTTTTCGCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATAAGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAATaccacc                                                            <  2:380444/250‑1 (MQ=255)
                                                                                                                                                                                                                     aacaaaCAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATCAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAAAGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTATTATCTCCAAAAACCACCCAATGCAATATAACCATTTataa                                     >  2:517833/4‑250 (MQ=255)
                                                                                                                                                                                                                        aaaCAAATAAATACAAGACAAT‑GGGGCCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTataaata                                  >  1:90777/1‑250 (MQ=255)
                                                                                                                                                                                                                                                       a‑CTGTACATATCATAAATAAGTTACTTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATa  <  2:469511/251‑1 (MQ=255)
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                          
ATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAA‑CTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATA  >  NC_000913/4542445‑4542942

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑