Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913753,1250TA28.6% 70.6 / 13.1 35intergenic (‑330/+60)ybgD/gltAputative fimbrial protein YbgD/citrate synthase
Reads supporting (aligned to +/- strand):  ref base T (21/4);  new base A (0/10);  total (21/14)
Fisher's exact test for biased strand distribution p-value = 5.45e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

TTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACC  >  NC_000913/752989‑753262
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ttATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATaaa                                                                                                                                        >  2:970586/1‑140 (MQ=255)
   taAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAAt                                                                                                                                     <  1:670952/140‑1 (MQ=255)
        gCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAcc                                                                                                                                <  1:955395/140‑1 (MQ=255)
         cGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAccc                                                                                                                               >  1:224864/1‑140 (MQ=255)
         cGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAAccc                                                                                                                               >  1:522881/1‑140 (MQ=255)
          gACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCg                                                                                                                              >  2:994960/1‑140 (MQ=255)
                      ttttttAATTAAAATTATTGGGTT‑GTTGATAATTTGAGTTTTTTTTTTTTTTTTAAATATCTATATAGGTTTTTAAATTGTTTTTATTTTTAAATTTTTTTGTTTTTAGGAATAAAAAAATCAACCCGCCATATGAAcgg                                                                                                                  <  2:1015283/139‑1 (MQ=255)
                       ttttttAATGAAAGTTTTGGGTTAGTTAATAATTGTAGCTGTTCTATTCTTTTTAAATTTCAAGATAGCTTTGTTAATGGTTTTTATTTTAACAATTTTTTGTGTTAGGGTAAACAAAAATCAACCCGCCATATGAAcgg                                                                                                                  <  2:906241/140‑1 (MQ=255)
                       tttttAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAAcggc                                                                                                                 >  2:102608/1‑140 (MQ=255)
                          ttaattaaAATTATTGGGTT‑GCTAATAATTTGAGCTTTTCTTTTTTTTTTAAATATTTATATAGGTTTTTAAATGGATTTTATTTTTACAATTTTTTGTGTTTAGAAATAAAAAAACCAACCCGCCATATGAACGGCggg                                                                                                              <  2:373145/140‑1 (MQ=255)
                                 aaaGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAat                                                                                                       >  1:498740/1‑140 (MQ=255)
                                      tttGGGTT‑GCTGATAATTGGATCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGTATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTa                                                                                                  <  2:236110/139‑1 (MQ=255)
                                      tttGGGTT‑GCTAATATTTTGAGTTTTTTTTTTTTTTTAAAATATCTATATAGGTTTTTAAATGGTTTTTTTTTTTACATTTTTTTGTTTTTAGGCATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTa                                                                                                  <  2:779769/139‑1 (MQ=255)
                                           ttt‑GCTGTTATTTTGATTTTTTCTTTTTTTTTTAATTATTTATATAGGTTTGTTAATGTATTTTTTTTTTAAATTTTTTTTTGTTTAGACAAAAAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACt                                                                                             <  2:224864/139‑1 (MQ=255)
                                                cTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGc                                                                                         >  1:284075/1‑140 (MQ=255)
                                                cTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGc                                                                                         >  1:1122207/1‑140 (MQ=255)
                                                     aaTTTGAGCTTTTTTTTTTTTTTAAAATATTTATATAGGTCTTTTAATGTTTTTTATTTTTACATTTTTTTGTTTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCa                                                                                    <  2:1122207/140‑1 (MQ=255)
                                                                ttCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGc                                                                         >  2:739149/1‑140 (MQ=255)
                                                                     ttCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGat                                                                    >  2:344969/1‑140 (MQ=255)
                                                                      tttttttAAATATTTATATAGGTCTGTTAATGTTTTTTTTTTTTACATTTTTTTGTGTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGata                                                                   <  2:1057562/138‑1 (MQ=255)
                                                                       ttttttAAATATTTATATAGGTTTTTTAATGTATTTTTTTTTTAAATTTTTTTGTTTTTAGAAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGatat                                                                  <  2:263158/139‑1 (MQ=255)
                                                                          tttAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGc                                                               >  1:263158/1‑140 (MQ=255)
                                                                          tttAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGc                                                               >  1:834967/1‑140 (MQ=255)
                                                                                    tatataGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACATAGCAATAAACCATTAACGCTTGATATTTCTTTTTAAGta                                                     >  2:834446/1‑139 (MQ=255)
                                                                                     atataGGTTTGTTAATGGTTTTTTTTTTTAAATTTTTTTGTTTTTAGGAAAAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTcg                                                    <  1:262605/140‑1 (MQ=255)
                                                                                        taGGTTTTTTAATGGTTTTTTTTTTTACAATTTTTTGTTTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGt                                                 <  1:862459/140‑1 (MQ=255)
                                                                                        taGGTCTGTTAATGGTTTTTTTTTTTAAATTTTTTTGTTTTTAGAAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGt                                                 <  2:383407/140‑1 (MQ=255)
                                                                                           gTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGtttt                                              >  1:1038305/1‑140 (MQ=255)
                                                                                              tGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGGTAACGCTTTTTAAGTCGCGtatttta                                           >  2:1006111/1‑138 (MQ=255)
                                                                                              tGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCa                                           >  1:1118110/1‑140 (MQ=255)
                                                                                               tttAATGGTTTTTTTTTTTCTATTTTTTTGTTTTTGGCCAAATAAAAACAAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCat                                          <  1:834446/139‑1 (MQ=255)
                                                                                                ttAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTTCAACTTAGCAAACAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGGTTTTCata                                         >  2:1039496/1‑140 (MQ=255)
                                                                                                ttAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCata                                         >  1:433150/1‑140 (MQ=255)
                                                                                                ttAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCata                                         >  2:769307/1‑140 (MQ=255)
                                                                                                  aaTGGTTTTTATTTTTAAATTTTTTTGTTTTTAGGAATAAAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATc                                       <  2:834967/140‑1 (MQ=255)
                                                                                                          ttattttTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGGTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATAc                               >  1:588978/1‑140 (MQ=255)
                                                                                                                       ttttttTGTTTAGGAATATAAAATTCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGAc                  <  2:979804/140‑1 (MQ=255)
                                                                                                                           tgttTTTAGGCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGc              <  1:248141/140‑1 (MQ=255)
                                                                                                                           tgtgTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGc              <  1:739149/140‑1 (MQ=255)
                                                                                                                           tgtgTTTAGGCATAAAAAAATCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGc              <  1:1006111/140‑1 (MQ=255)
                                                                                                                           tgtgTTTAGCCATATAAAAACCACCCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGc              <  1:791762/140‑1 (MQ=255)
                                                                                                                                  aGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTc       >  2:1016053/1‑140 (MQ=255)
                                                                                                                                       tataAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATAcc  >  2:165345/1‑140 (MQ=255)
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TTATAAATGCGACTACCATGAAGTTTTTAATTGAAAGTATTGGGTT‑GCTGATAATTTGAGCTGTTCTATTCTTTTTAAATATCTATATAGGTCTGTTAATGGATTTTATTTTTACAATTTTTTGTGTTTAGGCATATAAAAATCAACCCGCCATATGAACGGCGGGTTAAAATATTTACAACTTAGCAATCAACCATTAACGCTTGATATCGCTTTTAAAGTCGCGTTTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACC  >  NC_000913/752989‑753262

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑