Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,634,6580AG58.8% ‑6.0 / 36.5 34V76V (GTT→GTC) tfaQputative tail fiber assembly protein TfaQ
Reads supporting (aligned to +/- strand):  ref base A (10/4);  new base G (7/13);  total (17/17)
Fisher's exact test for biased strand distribution p-value = 7.99e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.82e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

TCCTCCGTTGCAATTTCCAGATCTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGCCATTATG  >  NC_000913/1634410‑1634889
                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                       
tcctccGTTGCAATTTCCCGATCTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGGAAAGTACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAAc                                                                                                                                                                                                                                       >  1:198074/1‑251 (MQ=9)
tccgccGTTGCAAGTTCCAGATCTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCTCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATaaa                                                                                                                                                                                                                                        <  1:5903/246‑1 (MQ=14)
            aTTTCCAGATCTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGCTTTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCg                                                                                                                                                                                                                           <  1:258884/251‑1 (MQ=11)
              ttCCAGATCTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGCAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCgat                                                                                                                                                                                                                         >  2:157286/1‑251 (MQ=14)
                      cTGCAGCATCCTGAAGCTGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCATGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTc                                                                                                                                                                                                                  >  1:102672/1‑250 (MQ=14)
                      cTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACAGAGTTCAGAATTAAATAACGCGTCGACGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTc                                                                                                                                                                                                                  >  2:197705/1‑250 (MQ=14)
                           gcatccgtaaGCGGCGCAATATGCTCACTGGCTACCTGCATCATGCTTTTTTTTGTTTCGTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCGTATATTCCCCTCCCGGCGATAACCATGTAAAATGTTCCGGTAACGGACCGAGTGCATAAATAAATAACGCGTCGCCGGAATCCACGTCATAGTCGGTTTTACCCCaatggtcggcaacgtg                                                                                                                                                                                                            <  2:151168/243‑13 (MQ=11)
                               ccTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGCTTTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATg                                                                                                                                                                                                         <  1:224576/250‑1 (MQ=11)
                                          gcAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACtc                                                                                                                                                                                             <  2:3987/251‑1 (MQ=31)
                                                     aCTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGCATC‑AGAACAAGTTTTTCTGATTCCGTCTCATTCACCCAGGATGTGACGTTACACTTCAGAAACTCCACTTACGGCGACAACCAGGCAACATTTTACGGTAACGAACCGAGTTCAGAACTAAACAACGCGTCAAAGGAAGCAACGGCCTAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTg                                                                                                                                                                                   >  1:17951/1‑250 (MQ=2)
                                                        ggCTAGCTGCATCCGGCTTTTTTATGTTTATTACGCCTCCCGGATCCGGCACA‑GTTTTTCTGCTATCGTATCCTTAACCCAGGCAGTGCCGTTCCCATTCTGATATTCCCCTCCCGGCGATAACCCGGTAAAATTTTCCGGTAACGGACAGGGATCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTATTCAACGAGATGCCACGATGCCTCATAACTGTTGaaa                                                                                                                                                                                >  2:150297/1‑250 (MQ=255)
                                                                  aTCAGGCTTTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCAcaa                                                                                                                                                                      >  1:216693/1‑248 (MQ=11)
                                                                      ggattttttttGTTTCTTCCTCCTACCGGATCCGGTACA‑GTTTTGCTGCTCCCGTATCCTTCCCCCAGGCTGGGCCGTTCCACTTCTGAATCTCCCATTCCGACGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTTCCCCGACGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAagcca                                                                                                                                                                 <  2:714/246‑1 (MQ=11)
                                                                          tttttttGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAagccagc                                                                                                                                                               <  2:192312/248‑1 (MQ=11)
                                                                               ttGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAat                                                                                                                                                         <  1:70168/250‑1 (MQ=11)
                                                                                       tcCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCg                                                                                                                                                 <  1:217080/250‑1 (MQ=11)
                                                                                                           cA‑GTTTATCTGCTTCCGCATCCTTCACGCAGGCTGAGCCGTTCCACTTCTGTTATTCCCCTCCCGGCGATACCCCGGTAACATTTTCCGGTAACGGACCGACTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGCTGCCACGATGCCTCATCACTGTTGAAAACAACCCCAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTg                                                                                                                            >  2:104920/1‑251 (MQ=11)
                                                                                                                      gCTTCCGTATCCTTCACCCAGGCTGGTCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAAAAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGAGGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATGTCGGTACTGTTTgcaggcag                                                                                                                     <  2:255492/248‑1 (MQ=11)
                                                                                                                           cGTATCCTTCACCCAGGCTGTGCCGTTCCCCTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCCCGTCATAGACGGTTTTACCCCGATGGTCTTCACCGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACCAAGCCCGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTAt                                                                                                             >  1:74626/1‑251 (MQ=11)
                                                                                                                                ccTTCCCCCAGGCTGTGCCGTTCCACTTCTGATATTCCCCTCCCGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCGGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAgg                                                                                                         <  2:20559/250‑1 (MQ=11)
                                                                                                                                           gCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGc                                                                                             >  1:10989/1‑251 (MQ=31)
                                                                                                                                                                         cccGGCGATAACCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATAGCGGTACTGTTTGCAGGCAGACCGGTATGATGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTcc                                                               <  1:58149/250‑1 (MQ=11)
                                                                                                                                                                          ccGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTcc                                                               <  2:28465/250‑1 (MQ=31)
                                                                                                                                                                            ggCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCCACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGc                                                            >  1:135197/1‑251 (MQ=14)
                                                                                                                                                                                 tAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCcagc                                                        >  2:189541/1‑250 (MQ=31)
                                                                                                                                                                                  aaCCAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCcagcag                                                      <  1:138615/251‑1 (MQ=11)
                                                                                                                                                                                     cAGGTAAAATTTTCCGGTAACGGACCGAGTTCAGCAATAAATAACGCGACGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGAtt                                                   >  2:45272/1‑251 (MQ=11)
                                                                                                                                                                                                    ggTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGt                                    >  2:74371/1‑251 (MQ=31)
                                                                                                                                                                                                              cGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGgttgt                          <  1:157286/251‑1 (MQ=31)
                                                                                                                                                                                                                        aataaataACGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTAATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTc                >  1:262102/1‑251 (MQ=11)
                                                                                                                                                                                                                               aaCGCGTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGAGGGTCGTCAACGAGATGCCACTATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAAGAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGc         <  1:230922/251‑1 (MQ=11)
                                                                                                                                                                                                                                    gTCGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGCGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGCCAttt    >  1:218132/1‑250 (MQ=11)
                                                                                                                                                                                                                                      cGCCGGAAGCCACGTCATAGACGGTTTTTCCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGCCATTATg  <  1:184081/251‑1 (MQ=11)
                                                                                                                                                                                                                                      cGCCGGAAGCCACGTCATAGACGGTTTTACCCCGATGGTCTTCAACGAGATGCCACGATGCCTCATCACTGTTGAAAACAGCCACAAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCAGGCAGACCGGTATGAGGCGGAATATATGCGTCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGCCATTATg  <  2:45491/251‑1 (MQ=11)
                                                                                                                                                                                                                                      cGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGCCATTATg  >  1:8486/1‑251 (MQ=11)
                                                                                                                                                                                                                                                         |                                                                                                                                                                                                                                       
TCCTCCGTTGCAATTTCCAGATCTGCAGCATCCTGAAGCGGCGCAATATGCTCACTGGCTACCTGCATCAGGTTGTTTTTTGTTTCTTCCGCCTCCCGGATCCGGAACA‑GTTTTTCTGCTTCCGTATCCTTCACCCAGGCTGTGCCGTTCCACTTCTGAAACTCCCCTTCCGGCGATAACCAGGTAACATTTTCCGGTAACGGACCGAGTTCAGAAATAAATAACGCGTCGCCGGAAGCCACGTCATAAACCGTTTTACCCCGATGATCTTCAACGAGATGCCACGATGACTCATCACTGTTGAAAACAGCCACGAAGCCAGCCGGAATATCTGGCGGTGCAATATCGGTACTGTTTGCTGGCAGACCTGTATGAGGCGGAATATATGCATCACCTTCACCAATAAATTCATTAGTTCCGGCCAGCAGATTATAAATTTTTATGGTCCGTGGTTGTTCACTCATTCTGAATGCCATTATG  >  NC_000913/1634410‑1634889

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑