Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,191,1030CT33.3% 48.9 / 12.0 33P158S (CCA→TCA) yqiIputative fimbrial protein YqiI
Reads supporting (aligned to +/- strand):  ref base C (5/17);  new base T (11/0);  total (16/17)
Fisher's exact test for biased strand distribution p-value = 2.26e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

AGGAGAAGAATACCCATCTGCATGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGTTGATCTGGAACCAGCTGATGGCGTTGTCGACT  >  NC_000913/3190856‑3191331
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                     
aGGAGAAGAATACCCATCGGCATGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAg                                                                                                                                                                                                                                    <  2:452304/251‑1 (MQ=255)
           aCCCATCTGCATGGGCAAAGATAATGATGTTGTTAGCATCAGGTCAAGACTTTGATAATCAAATCTCTTATTCTTTCGGTGTAACTTATAATGGTGTTGATTATGATTCTACAGCTCCACTACCTATTTCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCTCATTCTGTAGTGGCGGTCCTGAACCGCAATTATCATTAA‑CTTGTCCAGTTCGATTGCAg                                                                                                                                                                                                                         <  2:445616/251‑1 (MQ=255)
                tCTGCATGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGGACCGCCATATTCAATAA‑CTTTTTCAGTACGAGGGCTGCtat                                                                                                                                                                                                                     >  2:109822/1‑250 (MQ=255)
                    cATGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCACAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTTGACCGCAATTATCAGTAA‑ATTTTTCAGTACGAggtcaggcatttatt                                                                                                                                                                                                                >  1:184966/1‑237 (MQ=255)
                    cATGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATACTGGGGTTGATTATGCTTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTACTTAACCGCAATTATCAGTAA‑ATTTTTCAGTACGAGTGCCGCCATATAtt                                                                                                                                                                                                                >  1:211192/1‑251 (MQ=255)
                      tGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTCAACCGCCATTATCAGTAA‑CTTTTTCCGTACGAGTGCAGCTATATATTa                                                                                                                                                                                                               >  1:467629/1‑250 (MQ=255)
                         gCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTACTGAACCGCAAATATCTGTAA‑CTTTTTCAGTACGCGTGCAGCTATTTATTaaact                                                                                                                                                                                                           >  1:485216/1‑248 (MQ=255)
                               ataATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGGACCCCAATTATCAGGAA‑ATTTTTCCGTACGAGTGCAGCTATATATTAAact‑aacta                                                                                                                                                                                                     >  1:465865/1‑250 (MQ=255)
                                 aaTGATGTTGTTAGCATCAGGTCAAGACTTTAATAATCCAAACTCTTATCCTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAACGCGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAAACGCCCTTAACAGTAA‑ATCTTCCAGAACGAGGGCGGCTCTATATTaaccacgataaa                                                                                                                                                                                                    >  1:58129/1‑240 (MQ=255)
                                    gatgTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATg                                                                                                                                                                                               <  2:485216/251‑1 (MQ=255)
                                    gatgTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATg                                                                                                                                                                                               <  1:150818/251‑1 (MQ=255)
                                                  cAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGtaaat                                                                                                                                                                                 <  1:32384/251‑1 (MQ=255)
                                                       aaaGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATaaaaa                                                                                                                                                                            <  1:409547/250‑1 (MQ=255)
                                                                 gtgaTCAAAACGCTTATACGTTCGGTTTAACTTATGATGGAGTTGATTATGTTTCTACATCTCCCCCACCTATTTCCGCACCTGTATGTACTGAGATAAAGGGAGCCGGAACCATCTGGAATTGCTACAAATAGACCGCATTCTTTAGTGTCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAATACAAGTGCATATATATATTTAGCT‑AGCTAAAAATGCCAATAAAGTACATAAAAAACTTGTAtt                                                                                                                                                                   <  2:11397/247‑1 (MQ=255)
                                                                    agcAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAAGAAAGTAAATAAAAAACTTGTATTACCt                                                                                                                                                               <  2:190901/249‑1 (MQ=255)
                                                                      cAAAACTCTTATACTTTCGGTGTAACTTATAATGGCGTCGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATAGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCCCAAATATAAGTAA‑CTTTTTACGTACGAGAGCAGCTATATATTAAGAT‑AGCTAAAAATGCCAATAAAGTAAAAAAAAAACTTGTATTACCTg                                                                                                                                                              >  1:308585/1‑250 (MQ=255)
                                                                               tataCTTTCGGTCTAACTTATAATGGTGTTGATTATGATTCCACATCTCCACTACCTATTGCAGCGCCTGTATGTATTGATATAAAGGGAGCCGTAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTTTAGTGGCGGTCCTGAACCGCAATTATCGGGAT‑CGTTTCCAGTTCGAGTGTGGCTATATATTAAGCT‑ATCGAAAAAGGCCAATGTAGTAAATTAAATACTGGTAGTGCCTGGCGAata                                                                                                                                                       <  2:305781/248‑1 (MQ=255)
                                                                                    tttCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCCCCAATATCAGGAA‑ATTTTTCAGTACGAGGGCAGCTATATATTAAACT‑AGCTTAAAATGCCAAAAAAAGAAAAAAAAAACATGTATTAACTTACGAAAATATAgaa                                                                                                                                                >  1:391191/1‑248 (MQ=255)
                                                                                              aCTTATAATGGGGTTGATTATGATTCTACATCTCCCCGACCTATTGCAGCACCTGTATGGATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGTCGGTCATGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGTAGCTATATATTAAGCG‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACGTGACTTTaa                                                                                                                                     <  2:18842/251‑1 (MQ=255)
                                                                                                        gggTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTAGTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGc                                                                                                                           <  1:163668/251‑1 (MQ=255)
                                                                                                                   gATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAAACCCAATTTTCAGTAA‑ATTTTTCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAAAGCCAATAAAGTAAATAAAAAAATTTTATTACCTGACGAAAATATAGCACTTGAATTTAAAAGGATGAGCGGGGCAggggc                                                                                                                >  1:45513/1‑248 (MQ=255)
                                                                                                                               ccACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTGTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAg                                                                                                     <  1:482085/250‑1 (MQ=255)
                                                                                                                                                          atTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGCCCTGGACCGCAAATATAAGTAAACTTTTC‑AGTACGAGTGGCGCAATATATTAAACTTACTTAAAAATACCAA‑AAAATAAATAAAAAACCTATATTTCCTCACGAATTAAAAACAATTGGATTTAAAGGTATGAGCGGGGCAGGGGCTATAGACATAGAGaaaaaaatggcatttacagatcgc                                                                           >  2:273970/1‑230 (MQ=255)
                                                                                                                                                                        aGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAAACGCAATTATCAGTAA‑CTTTTTCAGGACGAGGGCAGCTATATATTAAGCT‑AGCTAAAAAAGCCAATAAAGTAAATAAAAAAATTGTATTTCCTGTCGAATATATAACACTTTAATTTTAAGGTATGAGCGGAGCAGGGGGTATAGAAGTAGATAAAAATATTACCTTCAGGATTTGCGGGTTaaaaaaaattt                                                           >  1:162083/1‑243 (MQ=255)
                                                                                                                                                                             gAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGTACCGCAAATATCAGTAA‑CTTTTTCAGTACGAGTGCAGCTATATATTTAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAAATTGTATTACCTGACGAATATATAACACTTGAATTTTAAGGTATGAGCGGAGCAGGGGCTATAAAAGGAGATAAAAATCTGAACTTCCGGAATCGCGGATTAAATAAAATTCATGTc                                                      >  1:24834/1‑251 (MQ=255)
                                                                                                                                                                             gAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCGTCAGGATTCGCGGATTAAATAACATTCATGTc                                                      <  2:24834/251‑1 (MQ=255)
                                                                                                                                                                                                cAAAAAGCCCTCAGTCTGTAGTGGCGGTCCTGAGCCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTTCCTGACGAATATATAGCACTTGAATTTAAAGGTATGATCGGAGCAGGTGCTATAGAAGTAGATAGAAATCTGACCTTCAGGATTCTCGGATTAAATACCATTCATGTCCTTGACTGCTTTGTTAATg                                   <  2:198612/251‑1 (MQ=255)
                                                                                                                                                                                                  aaaaGCCCGCAGTCTGTAGTGGCGGTCCTGAAACGCAAATATCAGTAA‑CTTTTCCAGTACGAGGGCAGCTATATATTAAACT‑AGCTAAAAATGCCAATAAAATAAATAAAAAACTTGTATTACCTGACGAATATATAACACTTGAATTTTAAAGTATGAGCGGAGCAGGGGCTATAGAAGTGGATAAAAATCTGACCTTCAGGATTCGCGGGTTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGtt                                 >  1:148019/1‑251 (MQ=255)
                                                                                                                                                                                                           cAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGTTGATCTGGaa                        <  2:45513/251‑1 (MQ=255)
                                                                                                                                                                                                                      ggCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGTTGATCTGGAACCAGCTGATgg             >  1:314041/1‑251 (MQ=255)
                                                                                                                                                                                                                      ggCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGTTGATCTGGAACCAGCTGATgg             <  1:41546/251‑1 (MQ=255)
                                                                                                                                                                                                                         ggTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTAAGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGCATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGTTGATCTGGAACCAGCTGATGGCGt          >  1:411634/1‑251 (MQ=255)
                                                                                                                                                                                                                                 aCCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATGAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAAGGTTGATCTGGAACCAGCTGATGGCGTTGTCGACt  <  1:61696/251‑1 (MQ=255)
                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                     
AGGAGAAGAATACCCATCTGCATGGGCAAATATAATGATGTTGTTAGCATCAGGTCAAGACTTTTATAATCAAAACTCTTATACTTTCGGTGTAACTTATAATGGGGTTGATTATGATTCTACATCTCCACTACCTATTGCAGCACCTGTATGTATTGATATAAAGGGAGCCGGAACCTTCGGGAATGGCTACAAAAAGCCCGCAGTCTGTAGTGGCGGTCCTGAACCGCAATTATCAGTAA‑CTTTTCCAGTACGAGTGCAGCTATATATTAAGCT‑AGCTAAAAATGCCAATAAAGTAAATAAAAAACTTGTATTACCTGACGAATATATAGCACTTGAATTTAAAGGTATGAGCGGAGCAGGTGCTATAGAAGTAGATAAAAATCTGACCTTCAGGATTCGCGGATTAAATAACATTCATGTCCTTGACTGCTTTGTTAATGTTGATCTGGAACCAGCTGATGGCGTTGTCGACT  >  NC_000913/3190856‑3191331

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑