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.94.7% 72.4 / ‑1.8 20intergenic (+50/‑432)fimE/fimAregulator for fimA/type 1 fimbriae major subunit
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base . (11/7);  total (13/7)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01

TGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAA‑A‑C‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATT  >  NC_000913/4542473‑4542929
                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                         
tGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTACCTCGGGCACCGAAATATTCGCCATACTGTGCTTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTAttt                                                                                                                                                                                                                 <  1:247692/250‑1 (MQ=255)
                aGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGTTTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAACA‑C‑TGTCAATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaaa                                                                                                                                                                                                 >  2:297720/1‑250 (MQ=255)
                                cAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCAGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATACAGTTAAAAAACCAAATAAATACAAGACA‑CTGGGGCCAA‑AAC‑TGTCCATCTCCTAAATAAGTTACGTATTTTTTCTCACGCATAAAAATATTAAAAAACGACac                                                                                                                                                                                >  1:267520/1‑250 (MQ=255)
                                             ggaaTCGAAATATTCGCCATACTGTGCTTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACt                                                                                                                                                                   <  1:39216/248‑1 (MQ=255)
                                                        atTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCa                                                                                                                                                                                                                                   <  1:199587/176‑1 (MQ=255)
                                                        atTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCa                                                                                                                                                                                                                                   >  2:199587/1‑176 (MQ=255)
                                                                 aCTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCAATATCATAAATAAGTTACGAATTTTTTCTCAAGAATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTAttt                                                                                                                                               >  1:402959/1‑251 (MQ=255)
                                                                                        tgctgcTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATc                                                                                                                        >  1:453809/1‑251 (MQ=255)
                                                                                                       cGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGGTTGATTTAACTTATTGATAAGAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GTGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGt                                                                                                         <  1:461141/251‑1 (MQ=255)
                                                                                                          agtATGGGAAAGAAATAATCTCAAAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTa                                                                                                        <  2:261541/247‑1 (MQ=255)
                                                                                                          aTTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTa                                                                                                        >  1:261541/1‑249 (MQ=255)
                                                                                                                ggAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATGGGGCCCAA‑A‑C‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACTTCACCTCCGCTATATGTAAATCTaa                                                                                                 >  2:136218/1‑250 (MQ=255)
                                                                                                                                                    agaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAAttt                                                                                                                              >  1:300530/1‑185 (MQ=255)
                                                                                                                                                    agaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑A‑AATGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAAttt                                                                                                                              <  2:300530/185‑1 (MQ=255)
                                                                                                                                                                 tttAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAATACAAT‑GGGGCAAA‑AAC‑AGTCCATATCATAAATAAGGTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCAGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTACCTCATTTTTCTCTCCAAAAaccacc                                               >  2:346417/1‑251 (MQ=255)
                                                                                                                                                                     aCTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCAt                                           >  1:308252/1‑251 (MQ=255)
                                                                                                                                                                        tATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCCTCTTCCTCCTTCTTCTCTCCAAAAACCACCTCATGc                                         >  2:69927/1‑250 (MQ=255)
                                                                                                                                                                                      ttAAAACAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaa                                                                                                                                                                                >  2:197747/1‑101 (MQ=255)
                                                                                                                                                                                      ttAAAAAAACAAATAAATACAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaa                                                                                                                                                                                <  1:197747/101‑1 (MQ=255)
                                                                                                                                                                                                       taCAAGACAAT‑GGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAAt          >  1:303809/1‑250 (MQ=255)
                                                                                                                                                                                                               caatGGGGCCAA‑AAC‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATAtt  >  1:363704/4‑251 (MQ=255)
                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                         
TGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAA‑A‑C‑TGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATT  >  NC_000913/4542473‑4542929

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑