Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913753,1250TA26.1% 96.5 / 13.7 46intergenic (‑330/+60)ybgD/gltAputative fimbrial protein YbgD/citrate synthase
Reads supporting (aligned to +/- strand):  ref base T (28/6);  new base A (0/12);  total (28/18)
Fisher's exact test for biased strand distribution p-value = 4.77e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACC  >  NC_000913/752986‑753262
                                                                                                                                           |                                                                                                                                         
gggTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCatat                                                                                                                                           >  2:545564/1‑140 (MQ=255)
 ggTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCAtata                                                                                                                                          <  2:189106/140‑1 (MQ=255)
     ataAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATaaaaa                                                                                                                                      >  2:1600440/1‑140 (MQ=255)
       aaaTGCGACTACCATGAATTTTTTAATTGAAAGTATTGGGTTGTTAATAATTTGAGCTTTTTTTTTTTTTTTAAATATTTATATAGGTCTTTTAATGGTTTTTTTTTTTACAATTTTTTGTGTTTAGGCATATAAAAATc                                                                                                                                    <  2:116401/140‑1 (MQ=255)
           gCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAcc                                                                                                                                >  2:996862/1‑140 (MQ=255)
           gCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAcc                                                                                                                                >  1:121000/1‑140 (MQ=255)
            cGACTCCCATGAATTTTTTAATTGAAAGTATTGGTTTGCTGATAATTTGAGCTTTTTTTTTTTTTTTAAATATCTATATAGGTCTGTTAATGTTTTTTATTTTTACATTTTTTTGTGTTTAGGCATATAAAAATCAAccc                                                                                                                               <  2:187350/140‑1 (MQ=255)
            cGACTACCATGAATTTTTTAATTAAAATTATTGGGTTGCTGATAATTTGAGCTGTTCTATTTTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTTTTTTTACAATTTTTTGTGTTTAGGCATAAAAAAATCAAccc                                                                                                                               <  2:496698/140‑1 (MQ=255)
            cGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAccc                                                                                                                               >  2:1793266/1‑140 (MQ=255)
                          tttttAATTAAAGGTTTGGGGTTGCTGTTATTTTTTGTTTTTTTTTTTTTTTTAATTTTTTATTTAGGTTTTTTATTTATTTTTTTTTTAAAAATTTTTTTTTTTTAGGCATATAAAAATCAACCCGCCATATGAAcggc                                                                                                                 <  2:1498873/140‑1 (MQ=255)
                           ttttAATTGAAAGTTTTGGGTTGCTGATATTTTGAGTTGTTTTATTTTTTTTAAATATCTATATGGGTCTTTTAATGGTTTTTATTTTTACATTTTTTTGTGTTTAGGAATAAAAAAATCAACCCGCCATATGAAcggcg                                                                                                                <  2:263241/140‑1 (MQ=255)
                            tttAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAAcggcgg                                                                                                               >  1:1197625/1‑140 (MQ=255)
                                         tttGGTTTGCTGATATTTTGAGCTTTTCTATTTTTTTTAAATATCTATATAGGTCTGTTAATGGTTTTTTTTTTTACATTTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTa                                                                                                  <  2:1029797/139‑1 (MQ=255)
                                                  cTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGc                                                                                         >  1:1768049/1‑140 (MQ=255)
                                                  cTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGc                                                                                         >  1:1706083/1‑140 (MQ=255)
                                                    gATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCaa                                                                                       >  1:589922/1‑140 (MQ=255)
                                                         tttGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAAc                                                                                  >  1:1019537/1‑140 (MQ=255)
                                                               cTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTaa                                                                            >  1:121725/1‑140 (MQ=255)
                                                                  ttCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGc                                                                         >  1:449769/1‑140 (MQ=255)
                                                                  ttCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGc                                                                         >  2:1634907/1‑140 (MQ=255)
                                                                   ttttttttttttAAATATTTATATAGGTTTTTTAATGGTTTTTTTTTTTACATTTTTTTGTTTTTAGGCATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCt                                                                        <  2:688857/133‑1 (MQ=255)
                                                                       ttCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGat                                                                    >  2:1706487/1‑140 (MQ=255)
                                                                          tttttAAATATTTATATGGTTTTGTTAATGTTTTTTTTTTTTACATTTTTTTGTTTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATc                                                                 <  2:555151/140‑1 (MQ=255)
                                                                            tttAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAAAGCTTGATATTGc                                                               >  2:1014192/1‑140 (MQ=255)
                                                                            tttAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAACAATCAACCATTAACGCTTGATATCGc                                                               >  2:613540/1‑140 (MQ=255)
                                                                                      tatataGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTc                                                     >  2:1588059/1‑140 (MQ=255)
                                                                                         ttggttttGTTAATGTTTTTTTTTTTTAAATTTTTTTGTTTTTAGGAATATAAAAATAAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTcgcg                                                  <  2:609652/133‑1 (MQ=255)
                                                                                         ataGTTCTTTTAATGTTTTTTTTTTTTAAATTTTTTTGTTTTAAGGAAAAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTcgcg                                                  <  2:449769/140‑1 (MQ=255)
                                                                                          taGGTCTGTTAATGGTTTTTATTTTTACATTTTTTTGTTTTTAGGCATAAAAAAACCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGt                                                 <  1:1600440/140‑1 (MQ=255)
                                                                                             gTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTTAATTAGTTTCAACTTTTCAATAAACCATTAACGCCTGATATCGCTTTTAAAGACGCGtttt                                              >  2:12734/1‑140 (MQ=255)
                                                                                             gTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGtttt                                              >  1:1794828/1‑140 (MQ=255)
                                                                                              tCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGttttt                                             >  2:1691639/1‑140 (MQ=255)
                                                                                              tCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGttttt                                             >  1:532085/1‑140 (MQ=255)
                                                                                              tCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGGTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGgtttt                                             >  1:654478/1‑140 (MQ=255)
                                                                                               tttttAATGTTTTTTTTTTTTAAATTTTTTTGTGTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTc                                            <  2:1794828/137‑1 (MQ=255)
                                                                                               cTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTc                                            <  1:1706487/140‑1 (MQ=255)
                                                                                                tGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTGAAATATTTTCAACTTAGCAATCAACCATTAACGCTTGATATCTCTTTTAAAATCGCGtttttta                                           >  2:1234486/1‑138 (MQ=255)
                                                                                                tGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCa                                           >  2:659781/1‑140 (MQ=255)
                                                                                                 tttAATGTATTTTATTTTTAAAATTTTTTGTTTTTAGGAATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCat                                          <  2:233767/139‑1 (MQ=255)
                                                                                                 tttAATGGTTTTTATTTTTACATTTTTTTGTTTTTAGACATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCat                                          <  2:1197625/139‑1 (MQ=255)
                                                                                                 tttAATGGATTTTTTTTTTACATTTTTTTGTTTTTAGAAAAAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCat                                          <  2:1768049/139‑1 (MQ=255)
                                                                                                 tttAATGGATTTTATTTTTAAAATTTTTTGTGTTAAGTCAAAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCat                                          <  2:430953/139‑1 (MQ=255)
                                                                                                  ttAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCata                                         >  1:606547/1‑140 (MQ=255)
                                                                                                   tAATGAATTTTATTTTTACAATTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCATGATATCGCTTTTAAAGTCGCGTTTTTCatat                                        <  1:224859/140‑1 (MQ=255)
                                                                                                    attgttttttattttTAAATTTTTTTTTGTTTAGGAATAAAAAATTCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATc                                       <  1:472727/134‑1 (MQ=255)
                                                                                                       ggATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTg                                    >  1:37278/1‑140 (MQ=255)
                                                                                                            ttattttTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATAc                               >  1:397892/1‑140 (MQ=255)
                                                                                                            ttattttTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAG‑CGCGTTTTTCATATCCTGTATACa                              >  1:525674/1‑140 (MQ=255)
                                                                                                              ttttttACATTTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAg                             <  2:1019537/139‑1 (MQ=255)
                                                                                                                ttttACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCt                           >  1:486646/1‑140 (MQ=255)
                                                                                                                  ttACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAG‑CGCGTTTTTCATATCCTGTATACAGCTGAc                        <  2:525674/140‑1 (MQ=255)
                                                                                                                             tgttTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGc              <  1:799876/140‑1 (MQ=255)
                                                                                                                                 tttAGACATATAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATc          <  2:654478/140‑1 (MQ=255)
                                                                                                                                   tAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCtt        <  1:1700718/140‑1 (MQ=255)
                                                                                                                                     ggCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCa      <  1:1274212/140‑1 (MQ=255)
                                                                                                                                        atatAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATAc   <  2:606547/140‑1 (MQ=255)
                                                                                                                                         tataAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGTCAATCTTCATAcc  >  2:487255/1‑140 (MQ=255)
                                                                                                                                           |                                                                                                                                         
GGGTTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTTGCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACC  >  NC_000913/752986‑753262

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑